-- dump date 20140619_070439 -- class Genbank::misc_feature -- table misc_feature_note -- id note 302409000001 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 302409000002 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 302409000003 dimerization interface [polypeptide binding]; other site 302409000004 active site 302409000005 membrane protein; Provisional; Region: PRK14394 302409000006 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 302409000007 active site 302409000008 putative DNA-binding cleft [nucleotide binding]; other site 302409000009 dimer interface [polypeptide binding]; other site 302409000010 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 302409000011 Subunit III/VIIa interface [polypeptide binding]; other site 302409000012 Phospholipid binding site [chemical binding]; other site 302409000013 Subunit I/III interface [polypeptide binding]; other site 302409000014 Subunit III/VIb interface [polypeptide binding]; other site 302409000015 Subunit III/VIa interface; other site 302409000016 Subunit III/Vb interface [polypeptide binding]; other site 302409000017 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 302409000018 substrate binding site [chemical binding]; other site 302409000019 active site 302409000020 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 302409000021 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 302409000022 Transporter associated domain; Region: CorC_HlyC; smart01091 302409000023 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 302409000024 Phage-related protein [Function unknown]; Region: COG4695 302409000025 Phage portal protein; Region: Phage_portal; pfam04860 302409000026 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 302409000027 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 302409000028 S-adenosylmethionine binding site [chemical binding]; other site 302409000029 quinolinate synthetase; Provisional; Region: PRK09375 302409000030 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 302409000031 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 302409000032 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 302409000033 type IV secretion system component VirD4; Provisional; Region: PRK13897 302409000034 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 302409000035 Walker A motif; other site 302409000036 ATP binding site [chemical binding]; other site 302409000037 Walker B motif; other site 302409000038 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 302409000039 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 302409000040 ATP binding site [chemical binding]; other site 302409000041 Walker A motif; other site 302409000042 hexamer interface [polypeptide binding]; other site 302409000043 Walker B motif; other site 302409000044 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 302409000045 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 302409000046 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 302409000047 VirB7 interaction site; other site 302409000048 VirB8 protein; Region: VirB8; pfam04335 302409000049 GTP cyclohydrolase; Provisional; Region: PRK08815 302409000050 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 302409000051 dimerization interface [polypeptide binding]; other site 302409000052 active site 302409000053 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 302409000054 binding surface 302409000055 Tetratricopeptide repeat; Region: TPR_16; pfam13432 302409000056 TPR motif; other site 302409000057 Methyltransferase domain; Region: Methyltransf_23; pfam13489 302409000058 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 302409000059 S-adenosylmethionine binding site [chemical binding]; other site 302409000060 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 302409000061 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 302409000062 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 302409000063 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 302409000064 Phosphoglycerate kinase; Region: PGK; pfam00162 302409000065 substrate binding site [chemical binding]; other site 302409000066 hinge regions; other site 302409000067 ADP binding site [chemical binding]; other site 302409000068 catalytic site [active] 302409000069 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 302409000070 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 302409000071 generic binding surface II; other site 302409000072 generic binding surface I; other site 302409000073 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 302409000074 generic binding surface I; other site 302409000075 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 302409000076 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 302409000077 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 302409000078 trimer interface [polypeptide binding]; other site 302409000079 active site 302409000080 substrate binding site [chemical binding]; other site 302409000081 CoA binding site [chemical binding]; other site 302409000082 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 302409000083 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 302409000084 trmE is a tRNA modification GTPase; Region: trmE; cd04164 302409000085 G1 box; other site 302409000086 GTP/Mg2+ binding site [chemical binding]; other site 302409000087 Switch I region; other site 302409000088 G2 box; other site 302409000089 Switch II region; other site 302409000090 G3 box; other site 302409000091 G4 box; other site 302409000092 G5 box; other site 302409000093 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 302409000094 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 302409000095 Flavoprotein; Region: Flavoprotein; pfam02441 302409000096 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 302409000097 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 302409000098 generic binding surface II; other site 302409000099 ssDNA binding site; other site 302409000100 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 302409000101 ATP binding site [chemical binding]; other site 302409000102 putative Mg++ binding site [ion binding]; other site 302409000103 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 302409000104 nucleotide binding region [chemical binding]; other site 302409000105 ATP-binding site [chemical binding]; other site 302409000106 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 302409000107 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 302409000108 putative NAD(P) binding site [chemical binding]; other site 302409000109 active site 302409000110 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 302409000111 CcmB protein; Region: CcmB; cl17444 302409000112 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 302409000113 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 302409000114 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 302409000115 DNA polymerase I; Provisional; Region: PRK05755 302409000116 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 302409000117 active site 302409000118 metal binding site 1 [ion binding]; metal-binding site 302409000119 putative 5' ssDNA interaction site; other site 302409000120 metal binding site 3; metal-binding site 302409000121 metal binding site 2 [ion binding]; metal-binding site 302409000122 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 302409000123 putative DNA binding site [nucleotide binding]; other site 302409000124 putative metal binding site [ion binding]; other site 302409000125 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 302409000126 active site 302409000127 catalytic site [active] 302409000128 substrate binding site [chemical binding]; other site 302409000129 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 302409000130 active site 302409000131 DNA binding site [nucleotide binding] 302409000132 catalytic site [active] 302409000133 ornithine carbamoyltransferase; Provisional; Region: PRK00779 302409000134 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 302409000135 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 302409000136 recombination protein F; Reviewed; Region: recF; PRK00064 302409000137 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 302409000138 Walker A/P-loop; other site 302409000139 ATP binding site [chemical binding]; other site 302409000140 Q-loop/lid; other site 302409000141 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 302409000142 ABC transporter signature motif; other site 302409000143 Walker B; other site 302409000144 D-loop; other site 302409000145 H-loop/switch region; other site 302409000146 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 302409000147 Fe-S cluster binding site [ion binding]; other site 302409000148 active site 302409000149 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 302409000150 active site 302409000151 catalytic residues [active] 302409000152 metal binding site [ion binding]; metal-binding site 302409000153 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 302409000154 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 302409000155 putative acyl-acceptor binding pocket; other site 302409000156 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 302409000157 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 302409000158 substrate binding site [chemical binding]; other site 302409000159 hexamer interface [polypeptide binding]; other site 302409000160 metal binding site [ion binding]; metal-binding site 302409000161 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 302409000162 Permease; Region: Permease; pfam02405 302409000163 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 302409000164 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 302409000165 Walker A/P-loop; other site 302409000166 ATP binding site [chemical binding]; other site 302409000167 Q-loop/lid; other site 302409000168 ABC transporter signature motif; other site 302409000169 Walker B; other site 302409000170 D-loop; other site 302409000171 H-loop/switch region; other site 302409000172 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409000173 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 302409000174 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 302409000175 substrate binding pocket [chemical binding]; other site 302409000176 chain length determination region; other site 302409000177 substrate-Mg2+ binding site; other site 302409000178 catalytic residues [active] 302409000179 aspartate-rich region 1; other site 302409000180 active site lid residues [active] 302409000181 aspartate-rich region 2; other site 302409000182 glutamine synthetase; Provisional; Region: glnA; PRK09469 302409000183 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 302409000184 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 302409000185 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 302409000186 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 302409000187 active site 302409000188 HIGH motif; other site 302409000189 dimer interface [polypeptide binding]; other site 302409000190 KMSKS motif; other site 302409000191 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 302409000192 RNA binding surface [nucleotide binding]; other site 302409000193 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 302409000194 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 302409000195 substrate-cofactor binding pocket; other site 302409000196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 302409000197 catalytic residue [active] 302409000198 hypothetical protein; Provisional; Region: PRK14683 302409000199 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 302409000200 Protein export membrane protein; Region: SecD_SecF; pfam02355 302409000201 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 302409000202 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 302409000203 putative active site; other site 302409000204 catalytic residue [active] 302409000205 Protein of unknown function (DUF3514); Region: DUF3514; pfam12027 302409000206 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 302409000207 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 302409000208 E3 interaction surface; other site 302409000209 lipoyl attachment site [posttranslational modification]; other site 302409000210 e3 binding domain; Region: E3_binding; pfam02817 302409000211 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 302409000212 Protein of unknown function (DUF3514); Region: DUF3514; pfam12027 302409000213 Protein of unknown function (DUF3514); Region: DUF3514; pfam12027 302409000214 Protein of unknown function (DUF3514); Region: DUF3514; pfam12027 302409000215 Protein of unknown function (DUF3514); Region: DUF3514; pfam12027 302409000216 Protein of unknown function (DUF3514); Region: DUF3514; pfam12027 302409000217 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 302409000218 GMP synthase; Reviewed; Region: guaA; PRK00074 302409000219 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 302409000220 conserved cys residue [active] 302409000221 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 302409000222 ATP Binding subdomain [chemical binding]; other site 302409000223 Ligand Binding sites [chemical binding]; other site 302409000224 Dimerization subdomain; other site 302409000225 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 302409000226 dimer interface [polypeptide binding]; other site 302409000227 Citrate synthase; Region: Citrate_synt; pfam00285 302409000228 active site 302409000229 citrylCoA binding site [chemical binding]; other site 302409000230 NADH binding [chemical binding]; other site 302409000231 cationic pore residues; other site 302409000232 oxalacetate/citrate binding site [chemical binding]; other site 302409000233 coenzyme A binding site [chemical binding]; other site 302409000234 catalytic triad [active] 302409000235 Glutamate-cysteine ligase; Region: GshA; pfam08886 302409000236 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 302409000237 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 302409000238 active site 302409000239 HIGH motif; other site 302409000240 nucleotide binding site [chemical binding]; other site 302409000241 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 302409000242 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 302409000243 active site 302409000244 KMSKS motif; other site 302409000245 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 302409000246 tRNA binding surface [nucleotide binding]; other site 302409000247 anticodon binding site; other site 302409000248 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 302409000249 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 302409000250 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 302409000251 SmpB-tmRNA interface; other site 302409000252 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 302409000253 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 302409000254 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 302409000255 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 302409000256 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 302409000257 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 302409000258 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 302409000259 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 302409000260 beta subunit interaction interface [polypeptide binding]; other site 302409000261 Walker A motif; other site 302409000262 ATP binding site [chemical binding]; other site 302409000263 Walker B motif; other site 302409000264 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 302409000265 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 302409000266 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 302409000267 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 302409000268 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 302409000269 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 302409000270 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 302409000271 FtsX-like permease family; Region: FtsX; pfam02687 302409000272 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 302409000273 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 302409000274 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 302409000275 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 302409000276 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 302409000277 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 302409000278 amidophosphoribosyltransferase; Provisional; Region: PRK09123 302409000279 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 302409000280 active site 302409000281 tetramer interface [polypeptide binding]; other site 302409000282 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 302409000283 active site 302409000284 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 302409000285 putative active site [active] 302409000286 catalytic residue [active] 302409000287 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 302409000288 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 302409000289 5S rRNA interface [nucleotide binding]; other site 302409000290 CTC domain interface [polypeptide binding]; other site 302409000291 L16 interface [polypeptide binding]; other site 302409000292 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 302409000293 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 302409000294 active site 302409000295 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 302409000296 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 302409000297 metal binding site [ion binding]; metal-binding site 302409000298 dimer interface [polypeptide binding]; other site 302409000299 putative cation:proton antiport protein; Provisional; Region: PRK10669 302409000300 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 302409000301 TrkA-N domain; Region: TrkA_N; pfam02254 302409000302 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 302409000303 putative catalytic residue [active] 302409000304 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 302409000305 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 302409000306 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 302409000307 alpha subunit interface [polypeptide binding]; other site 302409000308 TPP binding site [chemical binding]; other site 302409000309 heterodimer interface [polypeptide binding]; other site 302409000310 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 302409000311 protease TldD; Provisional; Region: tldD; PRK10735 302409000312 GTP-binding protein YchF; Reviewed; Region: PRK09601 302409000313 YchF GTPase; Region: YchF; cd01900 302409000314 G1 box; other site 302409000315 GTP/Mg2+ binding site [chemical binding]; other site 302409000316 Switch I region; other site 302409000317 G2 box; other site 302409000318 Switch II region; other site 302409000319 G3 box; other site 302409000320 G4 box; other site 302409000321 G5 box; other site 302409000322 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 302409000323 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 302409000324 homotrimer interaction site [polypeptide binding]; other site 302409000325 zinc binding site [ion binding]; other site 302409000326 CDP-binding sites; other site 302409000327 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 302409000328 substrate binding site; other site 302409000329 dimer interface; other site 302409000330 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 302409000331 AIR carboxylase; Region: AIRC; pfam00731 302409000332 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 302409000333 IHF - DNA interface [nucleotide binding]; other site 302409000334 IHF dimer interface [polypeptide binding]; other site 302409000335 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 302409000336 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 302409000337 DNA binding residues [nucleotide binding] 302409000338 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 302409000339 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 302409000340 active site 302409000341 HIGH motif; other site 302409000342 dimer interface [polypeptide binding]; other site 302409000343 KMSKS motif; other site 302409000344 heat shock protein GrpE; Provisional; Region: PRK14141 302409000345 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 302409000346 dimer interface [polypeptide binding]; other site 302409000347 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 302409000348 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 302409000349 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 302409000350 catalytic motif [active] 302409000351 Zn binding site [ion binding]; other site 302409000352 RibD C-terminal domain; Region: RibD_C; cl17279 302409000353 CTP synthetase; Validated; Region: pyrG; PRK05380 302409000354 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 302409000355 Catalytic site [active] 302409000356 active site 302409000357 UTP binding site [chemical binding]; other site 302409000358 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 302409000359 active site 302409000360 putative oxyanion hole; other site 302409000361 catalytic triad [active] 302409000362 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 302409000363 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 302409000364 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 302409000365 active site 302409000366 DNA binding site [nucleotide binding] 302409000367 Int/Topo IB signature motif; other site 302409000368 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 302409000369 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 302409000370 Walker A/P-loop; other site 302409000371 ATP binding site [chemical binding]; other site 302409000372 Q-loop/lid; other site 302409000373 ABC transporter signature motif; other site 302409000374 Walker B; other site 302409000375 D-loop; other site 302409000376 H-loop/switch region; other site 302409000377 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 302409000378 Malic enzyme, N-terminal domain; Region: malic; pfam00390 302409000379 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 302409000380 putative NAD(P) binding site [chemical binding]; other site 302409000381 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 302409000382 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 302409000383 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 302409000384 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 302409000385 putative active site [active] 302409000386 catalytic triad [active] 302409000387 putative dimer interface [polypeptide binding]; other site 302409000388 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12662 302409000389 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 302409000390 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 302409000391 mce related protein; Region: MCE; pfam02470 302409000392 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; pfam05071 302409000393 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 302409000394 ATP cone domain; Region: ATP-cone; pfam03477 302409000395 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 302409000396 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 302409000397 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 302409000398 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 302409000399 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 302409000400 metabolite-proton symporter; Region: 2A0106; TIGR00883 302409000401 putative substrate translocation pore; other site 302409000402 Uncharacterized conserved protein [Function unknown]; Region: COG2835 302409000403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 302409000404 NAD(P) binding site [chemical binding]; other site 302409000405 active site 302409000406 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 302409000407 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 302409000408 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 302409000409 dimer interface [polypeptide binding]; other site 302409000410 motif 1; other site 302409000411 active site 302409000412 motif 2; other site 302409000413 motif 3; other site 302409000414 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 302409000415 23S rRNA binding site [nucleotide binding]; other site 302409000416 L21 binding site [polypeptide binding]; other site 302409000417 L13 binding site [polypeptide binding]; other site 302409000418 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 302409000419 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 302409000420 transcription termination factor Rho; Provisional; Region: rho; PRK09376 302409000421 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 302409000422 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 302409000423 RNA binding site [nucleotide binding]; other site 302409000424 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 302409000425 multimer interface [polypeptide binding]; other site 302409000426 Walker A motif; other site 302409000427 ATP binding site [chemical binding]; other site 302409000428 Walker B motif; other site 302409000429 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 302409000430 HSP70 interaction site [polypeptide binding]; other site 302409000431 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 302409000432 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 302409000433 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 302409000434 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 302409000435 putative hydrolase; Provisional; Region: PRK02113 302409000436 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 302409000437 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 302409000438 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 302409000439 dimer interface [polypeptide binding]; other site 302409000440 conserved gate region; other site 302409000441 putative PBP binding loops; other site 302409000442 ABC-ATPase subunit interface; other site 302409000443 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 302409000444 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 302409000445 motif 1; other site 302409000446 active site 302409000447 motif 2; other site 302409000448 motif 3; other site 302409000449 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 302409000450 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 302409000451 CoA binding domain; Region: CoA_binding; smart00881 302409000452 CoA-ligase; Region: Ligase_CoA; pfam00549 302409000453 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 302409000454 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 302409000455 CoA-ligase; Region: Ligase_CoA; pfam00549 302409000456 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 302409000457 PBP superfamily domain; Region: PBP_like_2; cl17296 302409000458 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 302409000459 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 302409000460 Cu(I) binding site [ion binding]; other site 302409000461 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 302409000462 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 302409000463 FMN binding site [chemical binding]; other site 302409000464 substrate binding site [chemical binding]; other site 302409000465 putative catalytic residue [active] 302409000466 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 302409000467 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 302409000468 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 302409000469 dimer interface [polypeptide binding]; other site 302409000470 conserved gate region; other site 302409000471 putative PBP binding loops; other site 302409000472 ABC-ATPase subunit interface; other site 302409000473 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 302409000474 HlyD family secretion protein; Region: HlyD_3; pfam13437 302409000475 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 302409000476 COQ9; Region: COQ9; pfam08511 302409000477 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 302409000478 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 302409000479 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 302409000480 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 302409000481 S17 interaction site [polypeptide binding]; other site 302409000482 S8 interaction site; other site 302409000483 16S rRNA interaction site [nucleotide binding]; other site 302409000484 streptomycin interaction site [chemical binding]; other site 302409000485 23S rRNA interaction site [nucleotide binding]; other site 302409000486 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 302409000487 30S ribosomal protein S7; Validated; Region: PRK05302 302409000488 elongation factor G; Reviewed; Region: PRK00007 302409000489 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 302409000490 G1 box; other site 302409000491 putative GEF interaction site [polypeptide binding]; other site 302409000492 GTP/Mg2+ binding site [chemical binding]; other site 302409000493 Switch I region; other site 302409000494 G2 box; other site 302409000495 G3 box; other site 302409000496 Switch II region; other site 302409000497 G4 box; other site 302409000498 G5 box; other site 302409000499 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 302409000500 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 302409000501 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 302409000502 elongation factor Tu; Reviewed; Region: PRK00049 302409000503 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 302409000504 G1 box; other site 302409000505 GEF interaction site [polypeptide binding]; other site 302409000506 GTP/Mg2+ binding site [chemical binding]; other site 302409000507 Switch I region; other site 302409000508 G2 box; other site 302409000509 G3 box; other site 302409000510 Switch II region; other site 302409000511 G4 box; other site 302409000512 G5 box; other site 302409000513 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 302409000514 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 302409000515 Antibiotic Binding Site [chemical binding]; other site 302409000516 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 302409000517 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 302409000518 putative homodimer interface [polypeptide binding]; other site 302409000519 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 302409000520 heterodimer interface [polypeptide binding]; other site 302409000521 homodimer interface [polypeptide binding]; other site 302409000522 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 302409000523 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 302409000524 23S rRNA interface [nucleotide binding]; other site 302409000525 L7/L12 interface [polypeptide binding]; other site 302409000526 putative thiostrepton binding site; other site 302409000527 L25 interface [polypeptide binding]; other site 302409000528 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 302409000529 mRNA/rRNA interface [nucleotide binding]; other site 302409000530 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 302409000531 23S rRNA interface [nucleotide binding]; other site 302409000532 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 302409000533 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 302409000534 core dimer interface [polypeptide binding]; other site 302409000535 peripheral dimer interface [polypeptide binding]; other site 302409000536 L10 interface [polypeptide binding]; other site 302409000537 L11 interface [polypeptide binding]; other site 302409000538 putative EF-Tu interaction site [polypeptide binding]; other site 302409000539 putative EF-G interaction site [polypeptide binding]; other site 302409000540 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 302409000541 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 302409000542 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 302409000543 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 302409000544 RPB12 interaction site [polypeptide binding]; other site 302409000545 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 302409000546 RPB3 interaction site [polypeptide binding]; other site 302409000547 RPB1 interaction site [polypeptide binding]; other site 302409000548 RPB11 interaction site [polypeptide binding]; other site 302409000549 RPB10 interaction site [polypeptide binding]; other site 302409000550 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 302409000551 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 302409000552 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 302409000553 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 302409000554 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 302409000555 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 302409000556 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 302409000557 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 302409000558 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 302409000559 DNA binding site [nucleotide binding] 302409000560 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 302409000561 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 302409000562 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 302409000563 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 302409000564 catalytic residue [active] 302409000565 Predicted membrane protein [Function unknown]; Region: COG1238 302409000566 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 302409000567 RNA/DNA hybrid binding site [nucleotide binding]; other site 302409000568 active site 302409000569 Uncharacterized conserved protein [Function unknown]; Region: COG1315 302409000570 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 302409000571 pantothenate kinase; Reviewed; Region: PRK13318 302409000572 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 302409000573 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 302409000574 quinone interaction residues [chemical binding]; other site 302409000575 active site 302409000576 catalytic residues [active] 302409000577 FMN binding site [chemical binding]; other site 302409000578 substrate binding site [chemical binding]; other site 302409000579 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 302409000580 active site 302409000581 catalytic residues [active] 302409000582 metal binding site [ion binding]; metal-binding site 302409000583 argininosuccinate lyase; Provisional; Region: PRK00855 302409000584 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 302409000585 active sites [active] 302409000586 tetramer interface [polypeptide binding]; other site 302409000587 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 302409000588 active site 302409000589 nucleophile elbow; other site 302409000590 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 302409000591 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 302409000592 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 302409000593 BolA-like protein; Region: BolA; pfam01722 302409000594 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 302409000595 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 302409000596 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 302409000597 putative active site [active] 302409000598 putative PHP Thumb interface [polypeptide binding]; other site 302409000599 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 302409000600 generic binding surface II; other site 302409000601 generic binding surface I; other site 302409000602 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 302409000603 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 302409000604 putative active site [active] 302409000605 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 302409000606 Iron-sulfur protein interface; other site 302409000607 proximal quinone binding site [chemical binding]; other site 302409000608 SdhD (CybS) interface [polypeptide binding]; other site 302409000609 proximal heme binding site [chemical binding]; other site 302409000610 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 302409000611 Iron-sulfur protein interface; other site 302409000612 proximal heme binding site [chemical binding]; other site 302409000613 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 302409000614 dimer interface [polypeptide binding]; other site 302409000615 substrate binding site [chemical binding]; other site 302409000616 ATP binding site [chemical binding]; other site 302409000617 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 302409000618 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 302409000619 Walker A motif; other site 302409000620 ATP binding site [chemical binding]; other site 302409000621 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 302409000622 Domain of unknown function DUF20; Region: UPF0118; pfam01594 302409000623 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 302409000624 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 302409000625 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 302409000626 RNA binding surface [nucleotide binding]; other site 302409000627 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 302409000628 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 302409000629 Coenzyme A binding pocket [chemical binding]; other site 302409000630 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 302409000631 tetramer interfaces [polypeptide binding]; other site 302409000632 binuclear metal-binding site [ion binding]; other site 302409000633 trigger factor; Region: tig; TIGR00115 302409000634 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 302409000635 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 302409000636 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 302409000637 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 302409000638 oligomer interface [polypeptide binding]; other site 302409000639 active site residues [active] 302409000640 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 302409000641 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 302409000642 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 302409000643 Walker A motif; other site 302409000644 ATP binding site [chemical binding]; other site 302409000645 Walker B motif; other site 302409000646 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 302409000647 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 302409000648 Found in ATP-dependent protease La (LON); Region: LON; smart00464 302409000649 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 302409000650 Walker A motif; other site 302409000651 ATP binding site [chemical binding]; other site 302409000652 Walker B motif; other site 302409000653 arginine finger; other site 302409000654 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 302409000655 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 302409000656 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 302409000657 putative active site [active] 302409000658 substrate binding site [chemical binding]; other site 302409000659 putative cosubstrate binding site; other site 302409000660 catalytic site [active] 302409000661 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 302409000662 substrate binding site [chemical binding]; other site 302409000663 hypothetical protein; Validated; Region: PRK01415 302409000664 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 302409000665 active site residue [active] 302409000666 PEP synthetase regulatory protein; Provisional; Region: PRK05339 302409000667 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 302409000668 active site 302409000669 thiamine phosphate binding site [chemical binding]; other site 302409000670 pyrophosphate binding site [ion binding]; other site 302409000671 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 302409000672 Domain of unknown function DUF21; Region: DUF21; pfam01595 302409000673 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 302409000674 Transporter associated domain; Region: CorC_HlyC; smart01091 302409000675 YGGT family; Region: YGGT; cl00508 302409000676 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 302409000677 YL1 nuclear protein; Region: YL1; pfam05764 302409000678 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 302409000679 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 302409000680 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 302409000681 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 302409000682 inhibitor-cofactor binding pocket; inhibition site 302409000683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 302409000684 catalytic residue [active] 302409000685 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 302409000686 dimer interface [polypeptide binding]; other site 302409000687 phosphorylation site [posttranslational modification] 302409000688 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 302409000689 ATP binding site [chemical binding]; other site 302409000690 Mg2+ binding site [ion binding]; other site 302409000691 G-X-G motif; other site 302409000692 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 302409000693 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 302409000694 ATP binding site [chemical binding]; other site 302409000695 Mg2+ binding site [ion binding]; other site 302409000696 G-X-G motif; other site 302409000697 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 302409000698 ATP binding site [chemical binding]; other site 302409000699 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 302409000700 DNA translocase FtsK; Provisional; Region: PRK10263 302409000701 DNA protecting protein DprA; Region: dprA; TIGR00732 302409000702 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 302409000703 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 302409000704 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 302409000705 dimer interface [polypeptide binding]; other site 302409000706 active site 302409000707 acyl carrier protein; Provisional; Region: acpP; PRK00982 302409000708 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409000709 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 302409000710 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 302409000711 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409000712 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 302409000713 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 302409000714 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 302409000715 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 302409000716 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 302409000717 diiron binding motif [ion binding]; other site 302409000718 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 302409000719 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 302409000720 Ligand Binding Site [chemical binding]; other site 302409000721 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 302409000722 Part of AAA domain; Region: AAA_19; pfam13245 302409000723 Family description; Region: UvrD_C_2; pfam13538 302409000724 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 302409000725 DNA gyrase subunit A; Validated; Region: PRK05560 302409000726 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 302409000727 CAP-like domain; other site 302409000728 active site 302409000729 primary dimer interface [polypeptide binding]; other site 302409000730 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 302409000731 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 302409000732 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 302409000733 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 302409000734 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 302409000735 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 302409000736 minor groove reading motif; other site 302409000737 helix-hairpin-helix signature motif; other site 302409000738 substrate binding pocket [chemical binding]; other site 302409000739 active site 302409000740 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 302409000741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 302409000742 heat shock protein 90; Provisional; Region: PRK05218 302409000743 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 302409000744 ATP binding site [chemical binding]; other site 302409000745 Mg2+ binding site [ion binding]; other site 302409000746 G-X-G motif; other site 302409000747 adenylosuccinate lyase; Provisional; Region: PRK07492 302409000748 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 302409000749 tetramer interface [polypeptide binding]; other site 302409000750 active site 302409000751 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 302409000752 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 302409000753 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 302409000754 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 302409000755 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 302409000756 C-terminal domain interface [polypeptide binding]; other site 302409000757 GSH binding site (G-site) [chemical binding]; other site 302409000758 dimer interface [polypeptide binding]; other site 302409000759 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 302409000760 N-terminal domain interface [polypeptide binding]; other site 302409000761 dimer interface [polypeptide binding]; other site 302409000762 substrate binding pocket (H-site) [chemical binding]; other site 302409000763 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 302409000764 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 302409000765 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 302409000766 Walker A/P-loop; other site 302409000767 ATP binding site [chemical binding]; other site 302409000768 Q-loop/lid; other site 302409000769 ABC transporter signature motif; other site 302409000770 Walker B; other site 302409000771 D-loop; other site 302409000772 H-loop/switch region; other site 302409000773 TOBE domain; Region: TOBE_2; pfam08402 302409000774 recombination protein RecR; Reviewed; Region: recR; PRK00076 302409000775 RecR protein; Region: RecR; pfam02132 302409000776 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 302409000777 putative active site [active] 302409000778 putative metal-binding site [ion binding]; other site 302409000779 tetramer interface [polypeptide binding]; other site 302409000780 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 302409000781 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 302409000782 metal binding site [ion binding]; metal-binding site 302409000783 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 302409000784 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 302409000785 Walker A/P-loop; other site 302409000786 ATP binding site [chemical binding]; other site 302409000787 Q-loop/lid; other site 302409000788 ABC transporter signature motif; other site 302409000789 Walker B; other site 302409000790 D-loop; other site 302409000791 H-loop/switch region; other site 302409000792 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 302409000793 ABC1 family; Region: ABC1; cl17513 302409000794 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 302409000795 Major Facilitator Superfamily; Region: MFS_1; pfam07690 302409000796 putative substrate translocation pore; other site 302409000797 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 302409000798 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 302409000799 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 302409000800 FeS/SAM binding site; other site 302409000801 TRAM domain; Region: TRAM; pfam01938 302409000802 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 302409000803 Putative phage tail protein; Region: Phage-tail_3; pfam13550 302409000804 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 302409000805 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 302409000806 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 302409000807 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 302409000808 TPP-binding site [chemical binding]; other site 302409000809 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 302409000810 dimer interface [polypeptide binding]; other site 302409000811 PYR/PP interface [polypeptide binding]; other site 302409000812 TPP binding site [chemical binding]; other site 302409000813 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 302409000814 Phage capsid family; Region: Phage_capsid; pfam05065 302409000815 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 302409000816 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 302409000817 dimer interface [polypeptide binding]; other site 302409000818 active site 302409000819 catalytic residue [active] 302409000820 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 302409000821 nucleotide binding site/active site [active] 302409000822 HIT family signature motif; other site 302409000823 catalytic residue [active] 302409000824 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 302409000825 MutS domain I; Region: MutS_I; pfam01624 302409000826 MutS domain II; Region: MutS_II; pfam05188 302409000827 MutS domain III; Region: MutS_III; pfam05192 302409000828 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 302409000829 Walker A/P-loop; other site 302409000830 ATP binding site [chemical binding]; other site 302409000831 Q-loop/lid; other site 302409000832 ABC transporter signature motif; other site 302409000833 Walker B; other site 302409000834 D-loop; other site 302409000835 H-loop/switch region; other site 302409000836 NAD synthetase; Provisional; Region: PRK13981 302409000837 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 302409000838 active site 302409000839 catalytic triad [active] 302409000840 dimer interface [polypeptide binding]; other site 302409000841 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 302409000842 homodimer interface [polypeptide binding]; other site 302409000843 NAD binding pocket [chemical binding]; other site 302409000844 ATP binding pocket [chemical binding]; other site 302409000845 Mg binding site [ion binding]; other site 302409000846 active-site loop [active] 302409000847 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 302409000848 dimer interface [polypeptide binding]; other site 302409000849 allosteric magnesium binding site [ion binding]; other site 302409000850 active site 302409000851 aspartate-rich active site metal binding site; other site 302409000852 Schiff base residues; other site 302409000853 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 302409000854 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 302409000855 metabolite-proton symporter; Region: 2A0106; TIGR00883 302409000856 metabolite-proton symporter; Region: 2A0106; TIGR00883 302409000857 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 302409000858 putative substrate translocation pore; other site 302409000859 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 302409000860 metabolite-proton symporter; Region: 2A0106; TIGR00883 302409000861 putative substrate translocation pore; other site 302409000862 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 302409000863 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 302409000864 dimer interface [polypeptide binding]; other site 302409000865 ssDNA binding site [nucleotide binding]; other site 302409000866 tetramer (dimer of dimers) interface [polypeptide binding]; other site 302409000867 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 302409000868 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 302409000869 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 302409000870 GatB domain; Region: GatB_Yqey; smart00845 302409000871 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 302409000872 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 302409000873 NAD binding site [chemical binding]; other site 302409000874 homotetramer interface [polypeptide binding]; other site 302409000875 homodimer interface [polypeptide binding]; other site 302409000876 substrate binding site [chemical binding]; other site 302409000877 active site 302409000878 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 302409000879 DnaA N-terminal domain; Region: DnaA_N; pfam11638 302409000880 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 302409000881 Walker A motif; other site 302409000882 ATP binding site [chemical binding]; other site 302409000883 Walker B motif; other site 302409000884 arginine finger; other site 302409000885 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 302409000886 DnaA box-binding interface [nucleotide binding]; other site 302409000887 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 302409000888 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 302409000889 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 302409000890 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 302409000891 active site 302409000892 (T/H)XGH motif; other site 302409000893 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 302409000894 active site 302409000895 hydrophilic channel; other site 302409000896 dimerization interface [polypeptide binding]; other site 302409000897 catalytic residues [active] 302409000898 active site lid [active] 302409000899 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 302409000900 IHF - DNA interface [nucleotide binding]; other site 302409000901 IHF dimer interface [polypeptide binding]; other site 302409000902 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 302409000903 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 302409000904 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 302409000905 CoA-binding site [chemical binding]; other site 302409000906 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 302409000907 ThiC-associated domain; Region: ThiC-associated; pfam13667 302409000908 ThiC family; Region: ThiC; pfam01964 302409000909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 302409000910 Smr domain; Region: Smr; pfam01713 302409000911 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 302409000912 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 302409000913 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 302409000914 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 302409000915 HIGH motif; other site 302409000916 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 302409000917 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 302409000918 active site 302409000919 KMSKS motif; other site 302409000920 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 302409000921 tRNA binding surface [nucleotide binding]; other site 302409000922 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 302409000923 active site 302409000924 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 302409000925 active site 302409000926 dimer interface [polypeptide binding]; other site 302409000927 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 302409000928 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 302409000929 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 302409000930 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 302409000931 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 302409000932 NADH dehydrogenase subunit B; Validated; Region: PRK06411 302409000933 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 302409000934 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 302409000935 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 302409000936 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 302409000937 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 302409000938 transcription antitermination factor NusB; Region: nusB; TIGR01951 302409000939 putative RNA binding site [nucleotide binding]; other site 302409000940 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 302409000941 homopentamer interface [polypeptide binding]; other site 302409000942 active site 302409000943 membrane protein insertase; Provisional; Region: PRK01318 302409000944 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 302409000945 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 302409000946 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 302409000947 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 302409000948 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 302409000949 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 302409000950 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 302409000951 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 302409000952 FAD binding pocket [chemical binding]; other site 302409000953 FAD binding motif [chemical binding]; other site 302409000954 phosphate binding motif [ion binding]; other site 302409000955 beta-alpha-beta structure motif; other site 302409000956 NAD binding pocket [chemical binding]; other site 302409000957 Iron coordination center [ion binding]; other site 302409000958 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 302409000959 elongation factor P; Validated; Region: PRK00529 302409000960 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 302409000961 RNA binding site [nucleotide binding]; other site 302409000962 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 302409000963 RNA binding site [nucleotide binding]; other site 302409000964 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 302409000965 active site 302409000966 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 302409000967 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 302409000968 active site 302409000969 response regulator PleD; Reviewed; Region: pleD; PRK09581 302409000970 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 302409000971 active site 302409000972 phosphorylation site [posttranslational modification] 302409000973 intermolecular recognition site; other site 302409000974 dimerization interface [polypeptide binding]; other site 302409000975 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 302409000976 active site 302409000977 phosphorylation site [posttranslational modification] 302409000978 intermolecular recognition site; other site 302409000979 dimerization interface [polypeptide binding]; other site 302409000980 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 302409000981 metal binding site [ion binding]; metal-binding site 302409000982 active site 302409000983 I-site; other site 302409000984 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 302409000985 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 302409000986 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 302409000987 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 302409000988 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 302409000989 active site 302409000990 HIGH motif; other site 302409000991 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 302409000992 KMSKS motif; other site 302409000993 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 302409000994 tRNA binding surface [nucleotide binding]; other site 302409000995 anticodon binding site; other site 302409000996 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 302409000997 dimer interface [polypeptide binding]; other site 302409000998 putative radical transfer pathway; other site 302409000999 diiron center [ion binding]; other site 302409001000 tyrosyl radical; other site 302409001001 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 302409001002 Uncharacterized conserved protein [Function unknown]; Region: COG1565 302409001003 DNA primase; Validated; Region: dnaG; PRK05667 302409001004 CHC2 zinc finger; Region: zf-CHC2; pfam01807 302409001005 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 302409001006 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 302409001007 active site 302409001008 metal binding site [ion binding]; metal-binding site 302409001009 interdomain interaction site; other site 302409001010 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 302409001011 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 302409001012 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 302409001013 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 302409001014 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 302409001015 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 302409001016 DNA binding residues [nucleotide binding] 302409001017 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 302409001018 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 302409001019 FMN binding site [chemical binding]; other site 302409001020 active site 302409001021 catalytic residues [active] 302409001022 substrate binding site [chemical binding]; other site 302409001023 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14610 302409001024 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 302409001025 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 302409001026 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 302409001027 dimer interface [polypeptide binding]; other site 302409001028 phosphorylation site [posttranslational modification] 302409001029 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 302409001030 ATP binding site [chemical binding]; other site 302409001031 Mg2+ binding site [ion binding]; other site 302409001032 G-X-G motif; other site 302409001033 Response regulator receiver domain; Region: Response_reg; pfam00072 302409001034 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 302409001035 active site 302409001036 phosphorylation site [posttranslational modification] 302409001037 intermolecular recognition site; other site 302409001038 dimerization interface [polypeptide binding]; other site 302409001039 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 302409001040 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 302409001041 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 302409001042 putative carbohydrate kinase; Provisional; Region: PRK10565 302409001043 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 302409001044 putative substrate binding site [chemical binding]; other site 302409001045 putative ATP binding site [chemical binding]; other site 302409001046 DNA topoisomerase I; Validated; Region: PRK06599 302409001047 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 302409001048 active site 302409001049 interdomain interaction site; other site 302409001050 putative metal-binding site [ion binding]; other site 302409001051 nucleotide binding site [chemical binding]; other site 302409001052 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 302409001053 domain I; other site 302409001054 DNA binding groove [nucleotide binding] 302409001055 phosphate binding site [ion binding]; other site 302409001056 domain II; other site 302409001057 domain III; other site 302409001058 nucleotide binding site [chemical binding]; other site 302409001059 catalytic site [active] 302409001060 domain IV; other site 302409001061 Uncharacterized C-terminal domain of topoisomerase IA [General function prediction only]; Region: COG1754 302409001062 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 302409001063 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 302409001064 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 302409001065 Stringent starvation protein B; Region: SspB; pfam04386 302409001066 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14659 302409001067 prolyl-tRNA synthetase; Provisional; Region: PRK12325 302409001068 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 302409001069 dimer interface [polypeptide binding]; other site 302409001070 motif 1; other site 302409001071 active site 302409001072 motif 2; other site 302409001073 motif 3; other site 302409001074 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 302409001075 anticodon binding site; other site 302409001076 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 302409001077 conserved cys residue [active] 302409001078 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 302409001079 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 302409001080 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 302409001081 active site 302409001082 (T/H)XGH motif; other site 302409001083 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 302409001084 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 302409001085 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 302409001086 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 302409001087 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 302409001088 dimer interface [polypeptide binding]; other site 302409001089 decamer (pentamer of dimers) interface [polypeptide binding]; other site 302409001090 catalytic triad [active] 302409001091 peroxidatic and resolving cysteines [active] 302409001092 aspartate aminotransferase; Provisional; Region: PRK05764 302409001093 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 302409001094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 302409001095 homodimer interface [polypeptide binding]; other site 302409001096 catalytic residue [active] 302409001097 SurA N-terminal domain; Region: SurA_N_3; cl07813 302409001098 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 302409001099 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 302409001100 Glycoprotease family; Region: Peptidase_M22; pfam00814 302409001101 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 302409001102 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 302409001103 RNA binding site [nucleotide binding]; other site 302409001104 active site 302409001105 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 302409001106 16S/18S rRNA binding site [nucleotide binding]; other site 302409001107 S13e-L30e interaction site [polypeptide binding]; other site 302409001108 25S rRNA binding site [nucleotide binding]; other site 302409001109 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 302409001110 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 302409001111 oligomer interface [polypeptide binding]; other site 302409001112 RNA binding site [nucleotide binding]; other site 302409001113 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 302409001114 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 302409001115 RNase E interface [polypeptide binding]; other site 302409001116 trimer interface [polypeptide binding]; other site 302409001117 active site 302409001118 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 302409001119 putative nucleic acid binding region [nucleotide binding]; other site 302409001120 G-X-X-G motif; other site 302409001121 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 302409001122 RNA binding site [nucleotide binding]; other site 302409001123 domain interface; other site 302409001124 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 302409001125 GTP-binding protein LepA; Provisional; Region: PRK05433 302409001126 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 302409001127 G1 box; other site 302409001128 putative GEF interaction site [polypeptide binding]; other site 302409001129 GTP/Mg2+ binding site [chemical binding]; other site 302409001130 Switch I region; other site 302409001131 G2 box; other site 302409001132 G3 box; other site 302409001133 Switch II region; other site 302409001134 G4 box; other site 302409001135 G5 box; other site 302409001136 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 302409001137 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 302409001138 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 302409001139 Amidase; Region: Amidase; cl11426 302409001140 Protein of unknown function (DUF721); Region: DUF721; pfam05258 302409001141 This domain is found in peptide chain release factors; Region: PCRF; smart00937 302409001142 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 302409001143 RF-1 domain; Region: RF-1; pfam00472 302409001144 hypothetical protein; Validated; Region: PRK00110 302409001145 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 302409001146 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 302409001147 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 302409001148 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 302409001149 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; cl17708 302409001150 domain interfaces; other site 302409001151 active site 302409001152 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 302409001153 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 302409001154 G1 box; other site 302409001155 putative GEF interaction site [polypeptide binding]; other site 302409001156 GTP/Mg2+ binding site [chemical binding]; other site 302409001157 Switch I region; other site 302409001158 G2 box; other site 302409001159 G3 box; other site 302409001160 Switch II region; other site 302409001161 G4 box; other site 302409001162 G5 box; other site 302409001163 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 302409001164 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 302409001165 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 302409001166 C2 domain; Region: C2; cl14603 302409001167 4Fe-4S binding domain; Region: Fer4; pfam00037 302409001168 4Fe-4S binding domain; Region: Fer4; pfam00037 302409001169 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 302409001170 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 302409001171 Catalytic site [active] 302409001172 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 302409001173 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 302409001174 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 302409001175 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 302409001176 Zn2+ binding site [ion binding]; other site 302409001177 Mg2+ binding site [ion binding]; other site 302409001178 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 302409001179 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001180 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 302409001181 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001182 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001183 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 302409001184 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 302409001185 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001186 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 302409001187 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001188 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001189 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 302409001190 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 302409001191 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001192 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 302409001193 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 302409001194 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001195 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 302409001196 argininosuccinate synthase; Provisional; Region: PRK13820 302409001197 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 302409001198 ANP binding site [chemical binding]; other site 302409001199 Substrate Binding Site II [chemical binding]; other site 302409001200 Substrate Binding Site I [chemical binding]; other site 302409001201 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 302409001202 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 302409001203 heterotetramer interface [polypeptide binding]; other site 302409001204 active site pocket [active] 302409001205 cleavage site 302409001206 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 302409001207 putative catalytic site [active] 302409001208 putative phosphate binding site [ion binding]; other site 302409001209 active site 302409001210 metal binding site A [ion binding]; metal-binding site 302409001211 DNA binding site [nucleotide binding] 302409001212 putative AP binding site [nucleotide binding]; other site 302409001213 putative metal binding site B [ion binding]; other site 302409001214 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 302409001215 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 302409001216 NAD(P) binding site [chemical binding]; other site 302409001217 homotetramer interface [polypeptide binding]; other site 302409001218 homodimer interface [polypeptide binding]; other site 302409001219 active site 302409001220 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 302409001221 Proline dehydrogenase; Region: Pro_dh; pfam01619 302409001222 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 302409001223 Glutamate binding site [chemical binding]; other site 302409001224 NAD binding site [chemical binding]; other site 302409001225 catalytic residues [active] 302409001226 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 302409001227 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 302409001228 inhibitor-cofactor binding pocket; inhibition site 302409001229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 302409001230 catalytic residue [active] 302409001231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 302409001232 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 302409001233 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 302409001234 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 302409001235 oligomerization interface [polypeptide binding]; other site 302409001236 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 302409001237 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 302409001238 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 302409001239 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 302409001240 DNA binding residues [nucleotide binding] 302409001241 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 302409001242 30S subunit binding site; other site 302409001243 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001244 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 302409001245 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001246 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001247 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001248 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 302409001249 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 302409001250 core domain interface [polypeptide binding]; other site 302409001251 delta subunit interface [polypeptide binding]; other site 302409001252 epsilon subunit interface [polypeptide binding]; other site 302409001253 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 302409001254 GTP cyclohydrolase I; Provisional; Region: PLN03044 302409001255 active site 302409001256 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 302409001257 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 302409001258 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 302409001259 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 302409001260 S-adenosylmethionine binding site [chemical binding]; other site 302409001261 triosephosphate isomerase; Provisional; Region: PRK14565 302409001262 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 302409001263 substrate binding site [chemical binding]; other site 302409001264 dimer interface [polypeptide binding]; other site 302409001265 catalytic triad [active] 302409001266 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 302409001267 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 302409001268 UGMP family protein; Validated; Region: PRK09604 302409001269 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 302409001270 RDD family; Region: RDD; pfam06271 302409001271 Dihydroneopterin aldolase; Region: FolB; pfam02152 302409001272 active site 302409001273 malate dehydrogenase; Reviewed; Region: PRK06223 302409001274 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 302409001275 NAD(P) binding site [chemical binding]; other site 302409001276 dimer interface [polypeptide binding]; other site 302409001277 tetramer (dimer of dimers) interface [polypeptide binding]; other site 302409001278 substrate binding site [chemical binding]; other site 302409001279 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 302409001280 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 302409001281 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 302409001282 S-adenosylmethionine binding site [chemical binding]; other site 302409001283 Predicted transcriptional regulator [Transcription]; Region: COG1959 302409001284 Transcriptional regulator; Region: Rrf2; cl17282 302409001285 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 302409001286 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 302409001287 Predicted transcriptional regulator [Transcription]; Region: COG1959 302409001288 Transcriptional regulator; Region: Rrf2; cl17282 302409001289 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 302409001290 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 302409001291 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 302409001292 catalytic residue [active] 302409001293 cysteine desulfurase; Provisional; Region: PRK14012 302409001294 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 302409001295 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 302409001296 catalytic residue [active] 302409001297 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 302409001298 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 302409001299 trimerization site [polypeptide binding]; other site 302409001300 active site 302409001301 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 302409001302 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 302409001303 co-chaperone HscB; Provisional; Region: hscB; PRK05014 302409001304 HSP70 interaction site [polypeptide binding]; other site 302409001305 Udp N-acetylglucosamine O-acyltransferase; Domain 2; Region: Acetyltransf_11; pfam13720 302409001306 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 302409001307 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 302409001308 Fe-S protein assembly chaperone HscA; Region: HscA; TIGR01991 302409001309 nucleotide binding site [chemical binding]; other site 302409001310 putative NEF/HSP70 interaction site [polypeptide binding]; other site 302409001311 SBD interface [polypeptide binding]; other site 302409001312 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 302409001313 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 302409001314 catalytic loop [active] 302409001315 iron binding site [ion binding]; other site 302409001316 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 302409001317 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 302409001318 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 302409001319 active site 302409001320 nucleotide binding site [chemical binding]; other site 302409001321 HIGH motif; other site 302409001322 KMSKS motif; other site 302409001323 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 302409001324 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 302409001325 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 302409001326 dimerization interface 3.5A [polypeptide binding]; other site 302409001327 active site 302409001328 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 302409001329 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 302409001330 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 302409001331 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 302409001332 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 302409001333 Mg2+ binding site [ion binding]; other site 302409001334 G-X-G motif; other site 302409001335 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 302409001336 anchoring element; other site 302409001337 dimer interface [polypeptide binding]; other site 302409001338 ATP binding site [chemical binding]; other site 302409001339 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 302409001340 active site 302409001341 putative metal-binding site [ion binding]; other site 302409001342 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 302409001343 NADH dehydrogenase subunit G; Validated; Region: PRK09130 302409001344 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 302409001345 catalytic loop [active] 302409001346 iron binding site [ion binding]; other site 302409001347 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 302409001348 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 302409001349 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 302409001350 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 302409001351 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 302409001352 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 302409001353 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 302409001354 active site 302409001355 HIGH motif; other site 302409001356 nucleotide binding site [chemical binding]; other site 302409001357 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 302409001358 active site 302409001359 KMSKS motif; other site 302409001360 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 302409001361 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 302409001362 DNA binding site [nucleotide binding] 302409001363 catalytic residue [active] 302409001364 H2TH interface [polypeptide binding]; other site 302409001365 putative catalytic residues [active] 302409001366 turnover-facilitating residue; other site 302409001367 intercalation triad [nucleotide binding]; other site 302409001368 8OG recognition residue [nucleotide binding]; other site 302409001369 putative reading head residues; other site 302409001370 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 302409001371 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 302409001372 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 302409001373 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 302409001374 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 302409001375 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001376 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001377 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001378 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001379 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001380 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001381 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001382 VirB8 protein; Region: VirB8; cl01500 302409001383 NADH dehydrogenase subunit D; Validated; Region: PRK06075 302409001384 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 302409001385 NADH dehydrogenase subunit E; Validated; Region: PRK07539 302409001386 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 302409001387 putative dimer interface [polypeptide binding]; other site 302409001388 [2Fe-2S] cluster binding site [ion binding]; other site 302409001389 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001390 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 302409001391 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 302409001392 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 302409001393 Gram-negative porin; Region: Porin_4; pfam13609 302409001394 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 302409001395 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 302409001396 feedback inhibition sensing region; other site 302409001397 homohexameric interface [polypeptide binding]; other site 302409001398 nucleotide binding site [chemical binding]; other site 302409001399 N-acetyl-L-glutamate binding site [chemical binding]; other site 302409001400 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 302409001401 G1 box; other site 302409001402 GTP/Mg2+ binding site [chemical binding]; other site 302409001403 Switch I region; other site 302409001404 G2 box; other site 302409001405 G3 box; other site 302409001406 Switch II region; other site 302409001407 G4 box; other site 302409001408 G5 box; other site 302409001409 peptide chain release factor 1; Validated; Region: prfA; PRK00591 302409001410 This domain is found in peptide chain release factors; Region: PCRF; smart00937 302409001411 RF-1 domain; Region: RF-1; pfam00472 302409001412 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 302409001413 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 302409001414 RmuC family; Region: RmuC; pfam02646 302409001415 seryl-tRNA synthetase; Provisional; Region: PRK05431 302409001416 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 302409001417 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 302409001418 dimer interface [polypeptide binding]; other site 302409001419 active site 302409001420 motif 1; other site 302409001421 motif 2; other site 302409001422 motif 3; other site 302409001423 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 302409001424 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 302409001425 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 302409001426 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 302409001427 active site 302409001428 intersubunit interactions; other site 302409001429 catalytic residue [active] 302409001430 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; pfam02823 302409001431 gamma subunit interface [polypeptide binding]; other site 302409001432 epsilon subunit interface [polypeptide binding]; other site 302409001433 LBP interface [polypeptide binding]; other site 302409001434 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 302409001435 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 302409001436 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 302409001437 alpha subunit interaction interface [polypeptide binding]; other site 302409001438 Walker A motif; other site 302409001439 ATP binding site [chemical binding]; other site 302409001440 Walker B motif; other site 302409001441 inhibitor binding site; inhibition site 302409001442 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 302409001443 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 302409001444 MgtE intracellular N domain; Region: MgtE_N; smart00924 302409001445 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 302409001446 Divalent cation transporter; Region: MgtE; cl00786 302409001447 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 302409001448 Clp amino terminal domain; Region: Clp_N; pfam02861 302409001449 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 302409001450 Walker A motif; other site 302409001451 ATP binding site [chemical binding]; other site 302409001452 Walker B motif; other site 302409001453 arginine finger; other site 302409001454 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 302409001455 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 302409001456 Walker A motif; other site 302409001457 ATP binding site [chemical binding]; other site 302409001458 Walker B motif; other site 302409001459 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 302409001460 Integral membrane protein TerC family; Region: TerC; cl10468 302409001461 Ribosome-binding factor A; Region: RBFA; pfam02033 302409001462 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 302409001463 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 302409001464 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 302409001465 G1 box; other site 302409001466 putative GEF interaction site [polypeptide binding]; other site 302409001467 GTP/Mg2+ binding site [chemical binding]; other site 302409001468 Switch I region; other site 302409001469 G2 box; other site 302409001470 G3 box; other site 302409001471 Switch II region; other site 302409001472 G4 box; other site 302409001473 G5 box; other site 302409001474 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 302409001475 Translation-initiation factor 2; Region: IF-2; pfam11987 302409001476 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 302409001477 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 302409001478 NusA N-terminal domain; Region: NusA_N; pfam08529 302409001479 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 302409001480 RNA binding site [nucleotide binding]; other site 302409001481 homodimer interface [polypeptide binding]; other site 302409001482 NusA-like KH domain; Region: KH_5; pfam13184 302409001483 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 302409001484 G-X-X-G motif; other site 302409001485 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 302409001486 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 302409001487 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 302409001488 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 302409001489 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 302409001490 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 302409001491 DNA topoisomerase 2-like protein; Provisional; Region: PTZ00108 302409001492 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 302409001493 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 302409001494 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 302409001495 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 302409001496 NADH dehydrogenase subunit 2; Validated; Region: ND2; MTH00041 302409001497 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 302409001498 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 302409001499 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 302409001500 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 302409001501 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 302409001502 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 302409001503 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 302409001504 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 302409001505 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 302409001506 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 302409001507 SLBB domain; Region: SLBB; pfam10531 302409001508 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 302409001509 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 302409001510 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 302409001511 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 302409001512 enolase; Provisional; Region: eno; PRK00077 302409001513 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 302409001514 dimer interface [polypeptide binding]; other site 302409001515 metal binding site [ion binding]; metal-binding site 302409001516 substrate binding pocket [chemical binding]; other site 302409001517 GTPase CgtA; Reviewed; Region: obgE; PRK12299 302409001518 GTP1/OBG; Region: GTP1_OBG; pfam01018 302409001519 Obg GTPase; Region: Obg; cd01898 302409001520 G1 box; other site 302409001521 GTP/Mg2+ binding site [chemical binding]; other site 302409001522 Switch I region; other site 302409001523 G2 box; other site 302409001524 G3 box; other site 302409001525 Switch II region; other site 302409001526 G4 box; other site 302409001527 G5 box; other site 302409001528 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 302409001529 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 302409001530 S-adenosylmethionine binding site [chemical binding]; other site 302409001531 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 302409001532 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 302409001533 HIGH motif; other site 302409001534 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 302409001535 active site 302409001536 KMSKS motif; other site 302409001537 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 302409001538 tRNA binding surface [nucleotide binding]; other site 302409001539 anticodon binding site; other site 302409001540 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 302409001541 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 302409001542 catalytic triad [active] 302409001543 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 302409001544 RNA methyltransferase, RsmE family; Region: TIGR00046 302409001545 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 302409001546 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 302409001547 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 302409001548 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 302409001549 active site 302409001550 HIGH motif; other site 302409001551 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 302409001552 KMSK motif region; other site 302409001553 tRNA binding surface [nucleotide binding]; other site 302409001554 DALR anticodon binding domain; Region: DALR_1; smart00836 302409001555 anticodon binding site; other site 302409001556 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 302409001557 Recombination protein O C terminal; Region: RecO_C; pfam02565 302409001558 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 302409001559 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 302409001560 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 302409001561 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 302409001562 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 302409001563 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 302409001564 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 302409001565 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 302409001566 thiamine monophosphate kinase; Provisional; Region: PRK05731 302409001567 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 302409001568 ATP binding site [chemical binding]; other site 302409001569 dimerization interface [polypeptide binding]; other site 302409001570 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 302409001571 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 302409001572 active site 302409001573 catalytic site [active] 302409001574 substrate binding site [chemical binding]; other site 302409001575 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 302409001576 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 302409001577 Cytochrome c; Region: Cytochrom_C; cl11414 302409001578 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 302409001579 Qi binding site; other site 302409001580 intrachain domain interface; other site 302409001581 interchain domain interface [polypeptide binding]; other site 302409001582 cytochrome b; Provisional; Region: CYTB; MTH00156 302409001583 heme bH binding site [chemical binding]; other site 302409001584 heme bL binding site [chemical binding]; other site 302409001585 Qo binding site; other site 302409001586 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 302409001587 interchain domain interface [polypeptide binding]; other site 302409001588 intrachain domain interface; other site 302409001589 Qi binding site; other site 302409001590 Qo binding site; other site 302409001591 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 302409001592 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 302409001593 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 302409001594 [2Fe-2S] cluster binding site [ion binding]; other site 302409001595 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 302409001596 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 302409001597 ABC-ATPase subunit interface; other site 302409001598 dimer interface [polypeptide binding]; other site 302409001599 putative PBP binding regions; other site 302409001600 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 302409001601 elongation factor Ts; Provisional; Region: tsf; PRK09377 302409001602 UBA/TS-N domain; Region: UBA; pfam00627 302409001603 Elongation factor TS; Region: EF_TS; pfam00889 302409001604 Elongation factor TS; Region: EF_TS; pfam00889 302409001605 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 302409001606 rRNA interaction site [nucleotide binding]; other site 302409001607 S8 interaction site; other site 302409001608 putative laminin-1 binding site; other site 302409001609 Maf-like protein; Region: Maf; pfam02545 302409001610 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 302409001611 active site 302409001612 dimer interface [polypeptide binding]; other site 302409001613 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 302409001614 rRNA binding site [nucleotide binding]; other site 302409001615 predicted 30S ribosome binding site; other site 302409001616 HlyD family secretion protein; Region: HlyD_2; pfam12700 302409001617 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 302409001618 HlyD family secretion protein; Region: HlyD_3; pfam13437 302409001619 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 302409001620 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 302409001621 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 302409001622 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 302409001623 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 302409001624 Trp docking motif [polypeptide binding]; other site 302409001625 active site 302409001626 PQQ-like domain; Region: PQQ_2; pfam13360 302409001627 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 302409001628 phosphoglyceromutase; Provisional; Region: PRK05434 302409001629 GTP-binding protein Der; Reviewed; Region: PRK00093 302409001630 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 302409001631 G1 box; other site 302409001632 GTP/Mg2+ binding site [chemical binding]; other site 302409001633 Switch I region; other site 302409001634 G2 box; other site 302409001635 Switch II region; other site 302409001636 G3 box; other site 302409001637 G4 box; other site 302409001638 G5 box; other site 302409001639 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 302409001640 G1 box; other site 302409001641 GTP/Mg2+ binding site [chemical binding]; other site 302409001642 Switch I region; other site 302409001643 G2 box; other site 302409001644 G3 box; other site 302409001645 Switch II region; other site 302409001646 G4 box; other site 302409001647 G5 box; other site 302409001648 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 302409001649 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 302409001650 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 302409001651 catalytic site [active] 302409001652 subunit interface [polypeptide binding]; other site 302409001653 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 302409001654 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 302409001655 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 302409001656 trimer interface [polypeptide binding]; other site 302409001657 active site 302409001658 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 302409001659 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 302409001660 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 302409001661 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 302409001662 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 302409001663 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 302409001664 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 302409001665 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 302409001666 Walker A/P-loop; other site 302409001667 ATP binding site [chemical binding]; other site 302409001668 type IV secretion system protein VirB3; Provisional; Region: PRK13899 302409001669 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 302409001670 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 302409001671 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 302409001672 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 302409001673 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 302409001674 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 302409001675 dimer interface [polypeptide binding]; other site 302409001676 conserved gate region; other site 302409001677 putative PBP binding loops; other site 302409001678 ABC-ATPase subunit interface; other site 302409001679 lipoyl synthase; Provisional; Region: PRK05481 302409001680 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 302409001681 FeS/SAM binding site; other site 302409001682 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 302409001683 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 302409001684 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 302409001685 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 302409001686 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 302409001687 carboxyltransferase (CT) interaction site; other site 302409001688 biotinylation site [posttranslational modification]; other site 302409001689 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 302409001690 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 302409001691 RNA binding surface [nucleotide binding]; other site 302409001692 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 302409001693 active site 302409001694 diaminopimelate decarboxylase; Region: lysA; TIGR01048 302409001695 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 302409001696 active site 302409001697 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 302409001698 substrate binding site [chemical binding]; other site 302409001699 catalytic residues [active] 302409001700 dimer interface [polypeptide binding]; other site 302409001701 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 302409001702 primosome assembly protein PriA; Validated; Region: PRK05580 302409001703 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 302409001704 ATP binding site [chemical binding]; other site 302409001705 putative Mg++ binding site [ion binding]; other site 302409001706 helicase superfamily c-terminal domain; Region: HELICc; smart00490 302409001707 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 302409001708 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 302409001709 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 302409001710 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 302409001711 active site 302409001712 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 302409001713 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 302409001714 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 302409001715 active site 302409001716 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 302409001717 catalytic motif [active] 302409001718 Catalytic residue [active] 302409001719 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 302409001720 active site 302409001721 catalytic site [active] 302409001722 substrate binding site [chemical binding]; other site 302409001723 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 302409001724 GTPase Era; Reviewed; Region: era; PRK00089 302409001725 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 302409001726 G1 box; other site 302409001727 GTP/Mg2+ binding site [chemical binding]; other site 302409001728 Switch I region; other site 302409001729 G2 box; other site 302409001730 Switch II region; other site 302409001731 G3 box; other site 302409001732 G4 box; other site 302409001733 G5 box; other site 302409001734 KH domain; Region: KH_2; pfam07650 302409001735 signal recognition particle protein; Provisional; Region: PRK10867 302409001736 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 302409001737 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 302409001738 P loop; other site 302409001739 GTP binding site [chemical binding]; other site 302409001740 Signal peptide binding domain; Region: SRP_SPB; pfam02978 302409001741 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12664 302409001742 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 302409001743 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001744 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001745 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001746 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001747 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001748 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001749 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 302409001750 putative coenzyme Q binding site [chemical binding]; other site 302409001751 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 302409001752 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 302409001753 nucleotide binding site [chemical binding]; other site 302409001754 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 302409001755 RNA binding site [nucleotide binding]; other site 302409001756 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 302409001757 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 302409001758 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 302409001759 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12508 302409001760 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12504 302409001761 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 302409001762 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 302409001763 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12670 302409001764 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12603 302409001765 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001766 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001767 Protein of unknown function (DUF3023); Region: DUF3023; pfam11224 302409001768 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 302409001769 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 302409001770 TPP-binding site [chemical binding]; other site 302409001771 dimer interface [polypeptide binding]; other site 302409001772 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 302409001773 PYR/PP interface [polypeptide binding]; other site 302409001774 dimer interface [polypeptide binding]; other site 302409001775 TPP binding site [chemical binding]; other site 302409001776 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 302409001777 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 302409001778 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 302409001779 Zn binding site [ion binding]; other site 302409001780 putative outer membrane lipoprotein; Provisional; Region: PRK09967 302409001781 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 302409001782 ligand binding site [chemical binding]; other site 302409001783 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 302409001784 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 302409001785 GDP-binding site [chemical binding]; other site 302409001786 ACT binding site; other site 302409001787 IMP binding site; other site 302409001788 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 302409001789 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 302409001790 Class I ribonucleotide reductase; Region: RNR_I; cd01679 302409001791 active site 302409001792 dimer interface [polypeptide binding]; other site 302409001793 catalytic residues [active] 302409001794 effector binding site; other site 302409001795 R2 peptide binding site; other site 302409001796 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 302409001797 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 302409001798 substrate binding pocket [chemical binding]; other site 302409001799 chain length determination region; other site 302409001800 substrate-Mg2+ binding site; other site 302409001801 catalytic residues [active] 302409001802 aspartate-rich region 1; other site 302409001803 active site lid residues [active] 302409001804 aspartate-rich region 2; other site 302409001805 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 302409001806 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 302409001807 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 302409001808 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 302409001809 nucleoside/Zn binding site; other site 302409001810 dimer interface [polypeptide binding]; other site 302409001811 catalytic motif [active] 302409001812 replicative DNA helicase; Provisional; Region: PRK09165 302409001813 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 302409001814 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 302409001815 Walker A motif; other site 302409001816 ATP binding site [chemical binding]; other site 302409001817 Walker B motif; other site 302409001818 DNA binding loops [nucleotide binding] 302409001819 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 302409001820 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 302409001821 dimer interface [polypeptide binding]; other site 302409001822 active site 302409001823 CoA binding pocket [chemical binding]; other site 302409001824 putative phosphate acyltransferase; Provisional; Region: PRK05331 302409001825 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 302409001826 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 302409001827 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 302409001828 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14244 302409001829 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 302409001830 Walker A/P-loop; other site 302409001831 ATP binding site [chemical binding]; other site 302409001832 Q-loop/lid; other site 302409001833 ABC transporter signature motif; other site 302409001834 Walker B; other site 302409001835 D-loop; other site 302409001836 H-loop/switch region; other site 302409001837 dihydrodipicolinate reductase; Provisional; Region: PRK00048 302409001838 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 302409001839 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 302409001840 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 302409001841 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 302409001842 UbiA prenyltransferase family; Region: UbiA; pfam01040 302409001843 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 302409001844 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 302409001845 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 302409001846 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 302409001847 Competence protein; Region: Competence; pfam03772 302409001848 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 302409001849 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 302409001850 putative tRNA-binding site [nucleotide binding]; other site 302409001851 B3/4 domain; Region: B3_4; pfam03483 302409001852 tRNA synthetase B5 domain; Region: B5; smart00874 302409001853 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 302409001854 dimer interface [polypeptide binding]; other site 302409001855 motif 1; other site 302409001856 motif 3; other site 302409001857 motif 2; other site 302409001858 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 302409001859 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 302409001860 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 302409001861 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 302409001862 alphaNTD homodimer interface [polypeptide binding]; other site 302409001863 alphaNTD - beta interaction site [polypeptide binding]; other site 302409001864 alphaNTD - beta' interaction site [polypeptide binding]; other site 302409001865 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 302409001866 30S ribosomal protein S11; Validated; Region: PRK05309 302409001867 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 302409001868 30S ribosomal protein S13; Region: bact_S13; TIGR03631 302409001869 adenylate kinase; Region: adk; TIGR01351 302409001870 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 302409001871 AMP-binding site [chemical binding]; other site 302409001872 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 302409001873 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 302409001874 SecY translocase; Region: SecY; pfam00344 302409001875 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 302409001876 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 302409001877 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 302409001878 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 302409001879 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 302409001880 5S rRNA interface [nucleotide binding]; other site 302409001881 23S rRNA interface [nucleotide binding]; other site 302409001882 L5 interface [polypeptide binding]; other site 302409001883 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 302409001884 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 302409001885 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 302409001886 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 302409001887 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 302409001888 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 302409001889 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 302409001890 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 302409001891 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 302409001892 RNA binding site [nucleotide binding]; other site 302409001893 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 302409001894 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 302409001895 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 302409001896 putative translocon interaction site; other site 302409001897 23S rRNA interface [nucleotide binding]; other site 302409001898 signal recognition particle (SRP54) interaction site; other site 302409001899 L23 interface [polypeptide binding]; other site 302409001900 trigger factor interaction site; other site 302409001901 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 302409001902 23S rRNA interface [nucleotide binding]; other site 302409001903 5S rRNA interface [nucleotide binding]; other site 302409001904 putative antibiotic binding site [chemical binding]; other site 302409001905 L25 interface [polypeptide binding]; other site 302409001906 L27 interface [polypeptide binding]; other site 302409001907 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 302409001908 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 302409001909 G-X-X-G motif; other site 302409001910 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 302409001911 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 302409001912 putative translocon binding site; other site 302409001913 protein-rRNA interface [nucleotide binding]; other site 302409001914 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 302409001915 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 302409001916 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 302409001917 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 302409001918 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 302409001919 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 302409001920 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 302409001921 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 302409001922 elongation factor Tu; Reviewed; Region: PRK00049 302409001923 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 302409001924 G1 box; other site 302409001925 GEF interaction site [polypeptide binding]; other site 302409001926 GTP/Mg2+ binding site [chemical binding]; other site 302409001927 Switch I region; other site 302409001928 G2 box; other site 302409001929 G3 box; other site 302409001930 Switch II region; other site 302409001931 G4 box; other site 302409001932 G5 box; other site 302409001933 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 302409001934 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 302409001935 Antibiotic Binding Site [chemical binding]; other site 302409001936 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 302409001937 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 302409001938 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 302409001939 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 302409001940 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 302409001941 CMP-binding site; other site 302409001942 The sites determining sugar specificity; other site 302409001943 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 302409001944 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 302409001945 RNA binding site [nucleotide binding]; other site 302409001946 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 302409001947 RNA binding site [nucleotide binding]; other site 302409001948 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 302409001949 RNA binding site [nucleotide binding]; other site 302409001950 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 302409001951 RNA binding site [nucleotide binding]; other site 302409001952 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 302409001953 RNA binding site [nucleotide binding]; other site 302409001954 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 302409001955 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 302409001956 tandem repeat interface [polypeptide binding]; other site 302409001957 oligomer interface [polypeptide binding]; other site 302409001958 active site residues [active] 302409001959 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 302409001960 IHF - DNA interface [nucleotide binding]; other site 302409001961 IHF dimer interface [polypeptide binding]; other site 302409001962 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 302409001963 Cell division protein ZapA; Region: ZapA; pfam05164 302409001964 ferrochelatase; Reviewed; Region: hemH; PRK00035 302409001965 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 302409001966 C-terminal domain interface [polypeptide binding]; other site 302409001967 active site 302409001968 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 302409001969 active site 302409001970 N-terminal domain interface [polypeptide binding]; other site 302409001971 Predicted ATPase [General function prediction only]; Region: COG1485 302409001972 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 302409001973 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 302409001974 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 302409001975 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 302409001976 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 302409001977 Part of AAA domain; Region: AAA_19; pfam13245 302409001978 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 302409001979 Family description; Region: UvrD_C_2; pfam13538 302409001980 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 302409001981 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 302409001982 NADP binding site [chemical binding]; other site 302409001983 dimer interface [polypeptide binding]; other site 302409001984 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 302409001985 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 302409001986 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 302409001987 Walker A/P-loop; other site 302409001988 ATP binding site [chemical binding]; other site 302409001989 Q-loop/lid; other site 302409001990 ABC transporter signature motif; other site 302409001991 Walker B; other site 302409001992 D-loop; other site 302409001993 H-loop/switch region; other site 302409001994 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 302409001995 dihydropteroate synthase; Region: DHPS; TIGR01496 302409001996 substrate binding pocket [chemical binding]; other site 302409001997 dimer interface [polypeptide binding]; other site 302409001998 inhibitor binding site; inhibition site 302409001999 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 302409002000 dihydropteroate synthase; Region: DHPS; TIGR01496 302409002001 substrate binding pocket [chemical binding]; other site 302409002002 dimer interface [polypeptide binding]; other site 302409002003 inhibitor binding site; inhibition site 302409002004 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 302409002005 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 302409002006 ATP-grasp domain; Region: ATP-grasp_4; cl17255 302409002007 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 302409002008 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 302409002009 ATP-grasp domain; Region: ATP-grasp_4; cl17255 302409002010 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 302409002011 substrate binding site [chemical binding]; other site 302409002012 fumarate hydratase; Reviewed; Region: fumC; PRK00485 302409002013 Class II fumarases; Region: Fumarase_classII; cd01362 302409002014 active site 302409002015 tetramer interface [polypeptide binding]; other site 302409002016 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 302409002017 dihydroorotase; Validated; Region: pyrC; PRK09357 302409002018 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 302409002019 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 302409002020 active site 302409002021 lipoate-protein ligase B; Provisional; Region: PRK14341 302409002022 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 302409002023 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 302409002024 active site 302409002025 substrate binding site [chemical binding]; other site 302409002026 cosubstrate binding site; other site 302409002027 catalytic site [active] 302409002028 multifunctional aminopeptidase A; Provisional; Region: PRK00913 302409002029 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 302409002030 interface (dimer of trimers) [polypeptide binding]; other site 302409002031 Substrate-binding/catalytic site; other site 302409002032 Zn-binding sites [ion binding]; other site 302409002033 Protocatechuate 3,4-dioxygenase (3,4-PCD) catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and beta-subunit and an Fe3+ ion...; Region: 3,4-PCD; cd03459 302409002034 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 302409002035 Clp amino terminal domain; Region: Clp_N; pfam02861 302409002036 Clp amino terminal domain; Region: Clp_N; pfam02861 302409002037 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 302409002038 Walker A motif; other site 302409002039 ATP binding site [chemical binding]; other site 302409002040 Walker B motif; other site 302409002041 arginine finger; other site 302409002042 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 302409002043 Walker A motif; other site 302409002044 ATP binding site [chemical binding]; other site 302409002045 Walker B motif; other site 302409002046 arginine finger; other site 302409002047 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 302409002048 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 302409002049 classical (c) SDRs; Region: SDR_c; cd05233 302409002050 NAD(P) binding site [chemical binding]; other site 302409002051 active site 302409002052 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 302409002053 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 302409002054 ring oligomerisation interface [polypeptide binding]; other site 302409002055 ATP/Mg binding site [chemical binding]; other site 302409002056 stacking interactions; other site 302409002057 hinge regions; other site 302409002058 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 302409002059 oligomerisation interface [polypeptide binding]; other site 302409002060 mobile loop; other site 302409002061 roof hairpin; other site 302409002062 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 302409002063 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 302409002064 MPN+ (JAMM) motif; other site 302409002065 Zinc-binding site [ion binding]; other site 302409002066 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 302409002067 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 302409002068 putative active site [active] 302409002069 catalytic triad [active] 302409002070 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 302409002071 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 302409002072 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 302409002073 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 302409002074 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 302409002075 putative active site [active] 302409002076 Peptidase family M23; Region: Peptidase_M23; pfam01551 302409002077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 302409002078 biotin synthase; Region: bioB; TIGR00433 302409002079 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 302409002080 FeS/SAM binding site; other site 302409002081 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 302409002082 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 302409002083 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 302409002084 dimerization interface [polypeptide binding]; other site 302409002085 ATP binding site [chemical binding]; other site 302409002086 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 302409002087 dimerization interface [polypeptide binding]; other site 302409002088 ATP binding site [chemical binding]; other site 302409002089 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 302409002090 catalytic center binding site [active] 302409002091 ATP binding site [chemical binding]; other site 302409002092 Peptidase family M48; Region: Peptidase_M48; cl12018 302409002093 Tetratricopeptide repeat; Region: TPR_16; pfam13432 302409002094 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 302409002095 binding surface 302409002096 TPR motif; other site 302409002097 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 302409002098 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 302409002099 putative active site [active] 302409002100 heme pocket [chemical binding]; other site 302409002101 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 302409002102 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 302409002103 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 302409002104 dimerization interface [polypeptide binding]; other site 302409002105 putative ATP binding site [chemical binding]; other site 302409002106 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 302409002107 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 302409002108 active site 302409002109 DNA binding site [nucleotide binding] 302409002110 Int/Topo IB signature motif; other site 302409002111 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK14620 302409002112 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 302409002113 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 302409002114 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 302409002115 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 302409002116 active site 302409002117 phosphorylation site [posttranslational modification] 302409002118 intermolecular recognition site; other site 302409002119 dimerization interface [polypeptide binding]; other site 302409002120 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 302409002121 Walker A motif; other site 302409002122 ATP binding site [chemical binding]; other site 302409002123 Walker B motif; other site 302409002124 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 302409002125 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 302409002126 Cell division protein FtsQ; Region: FtsQ; pfam03799 302409002127 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 302409002128 active site 302409002129 phosphorylation site [posttranslational modification] 302409002130 intermolecular recognition site; other site 302409002131 dimerization interface [polypeptide binding]; other site 302409002132 glutathione synthetase; Provisional; Region: PRK05246 302409002133 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 302409002134 ATP-grasp domain; Region: ATP-grasp_4; cl17255 302409002135 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 302409002136 BON domain; Region: BON; pfam04972 302409002137 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 302409002138 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 302409002139 dimer interface [polypeptide binding]; other site 302409002140 anticodon binding site; other site 302409002141 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 302409002142 homodimer interface [polypeptide binding]; other site 302409002143 motif 1; other site 302409002144 active site 302409002145 motif 2; other site 302409002146 GAD domain; Region: GAD; pfam02938 302409002147 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 302409002148 active site 302409002149 motif 3; other site 302409002150 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 302409002151 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 302409002152 motif II; other site 302409002153 RDD family; Region: RDD; pfam06271 302409002154 pyruvate phosphate dikinase; Provisional; Region: PRK09279 302409002155 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 302409002156 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 302409002157 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 302409002158 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 302409002159 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 302409002160 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 302409002161 Cytochrome c2 [Energy production and conversion]; Region: COG3474 302409002162 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14187 302409002163 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 302409002164 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 302409002165 homodimer interface [polypeptide binding]; other site 302409002166 NADP binding site [chemical binding]; other site 302409002167 substrate binding site [chemical binding]; other site 302409002168 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 302409002169 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 302409002170 catalytic site [active] 302409002171 G-X2-G-X-G-K; other site 302409002172 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 302409002173 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14600 302409002174 RuvA N terminal domain; Region: RuvA_N; pfam01330 302409002175 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 302409002176 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 302409002177 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 302409002178 Walker A motif; other site 302409002179 ATP binding site [chemical binding]; other site 302409002180 Walker B motif; other site 302409002181 arginine finger; other site 302409002182 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 302409002183 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 302409002184 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 302409002185 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 302409002186 putative substrate translocation pore; other site 302409002187 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 302409002188 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 302409002189 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 302409002190 catalytic loop [active] 302409002191 iron binding site [ion binding]; other site 302409002192 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 302409002193 L-aspartate oxidase; Provisional; Region: PRK06175 302409002194 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 302409002195 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 302409002196 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 302409002197 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 302409002198 Walker A/P-loop; other site 302409002199 ATP binding site [chemical binding]; other site 302409002200 Q-loop/lid; other site 302409002201 ABC transporter signature motif; other site 302409002202 Walker B; other site 302409002203 D-loop; other site 302409002204 H-loop/switch region; other site 302409002205 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cl00238 302409002206 putative iron binding site [ion binding]; other site 302409002207 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 302409002208 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 302409002209 dimer interface [polypeptide binding]; other site 302409002210 active site 302409002211 glycine-pyridoxal phosphate binding site [chemical binding]; other site 302409002212 folate binding site [chemical binding]; other site 302409002213 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 302409002214 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 302409002215 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 302409002216 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 302409002217 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 302409002218 Colicin V production protein; Region: Colicin_V; pfam02674 302409002219 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 302409002220 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 302409002221 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 302409002222 DNA repair protein RadA; Provisional; Region: PRK11823 302409002223 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 302409002224 Walker A motif; other site 302409002225 ATP binding site [chemical binding]; other site 302409002226 Walker B motif; other site 302409002227 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 302409002228 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 302409002229 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 302409002230 catalytic residues [active] 302409002231 central insert; other site 302409002232 BolA-like protein; Region: BolA; pfam01722 302409002233 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 302409002234 putative GSH binding site [chemical binding]; other site 302409002235 catalytic residues [active] 302409002236 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 302409002237 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 302409002238 nucleotide binding pocket [chemical binding]; other site 302409002239 K-X-D-G motif; other site 302409002240 catalytic site [active] 302409002241 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 302409002242 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 302409002243 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 302409002244 Dimer interface [polypeptide binding]; other site 302409002245 BRCT sequence motif; other site 302409002246 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 302409002247 catalytic site [active] 302409002248 putative active site [active] 302409002249 putative substrate binding site [chemical binding]; other site 302409002250 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 302409002251 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 302409002252 dimerization interface [polypeptide binding]; other site 302409002253 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 302409002254 dimer interface [polypeptide binding]; other site 302409002255 phosphorylation site [posttranslational modification] 302409002256 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 302409002257 ATP binding site [chemical binding]; other site 302409002258 Mg2+ binding site [ion binding]; other site 302409002259 G-X-G motif; other site 302409002260 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 302409002261 DNA-binding site [nucleotide binding]; DNA binding site 302409002262 RNA-binding motif; other site 302409002263 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 302409002264 NADH(P)-binding; Region: NAD_binding_10; pfam13460 302409002265 putative NAD(P) binding site [chemical binding]; other site 302409002266 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 302409002267 trimer interface [polypeptide binding]; other site 302409002268 active site 302409002269 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 302409002270 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 302409002271 ATP binding site [chemical binding]; other site 302409002272 active site 302409002273 substrate binding site [chemical binding]; other site 302409002274 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 302409002275 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 302409002276 dimer interface [polypeptide binding]; other site 302409002277 motif 1; other site 302409002278 active site 302409002279 motif 2; other site 302409002280 motif 3; other site 302409002281 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 302409002282 anticodon binding site; other site 302409002283 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 302409002284 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 302409002285 catalytic residues [active] 302409002286 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 302409002287 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 302409002288 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 302409002289 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 302409002290 Walker A/P-loop; other site 302409002291 ATP binding site [chemical binding]; other site 302409002292 Q-loop/lid; other site 302409002293 ABC transporter signature motif; other site 302409002294 Walker B; other site 302409002295 D-loop; other site 302409002296 H-loop/switch region; other site 302409002297 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 302409002298 active site 302409002299 DNA binding site [nucleotide binding] 302409002300 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 302409002301 nucleotide binding site [chemical binding]; other site 302409002302 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 302409002303 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 302409002304 ribosome recycling factor; Reviewed; Region: frr; PRK00083 302409002305 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 302409002306 hinge region; other site 302409002307 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 302409002308 putative nucleotide binding site [chemical binding]; other site 302409002309 uridine monophosphate binding site [chemical binding]; other site 302409002310 homohexameric interface [polypeptide binding]; other site 302409002311 Protein of unknown function; Region: DUF3971; pfam13116 302409002312 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 302409002313 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 302409002314 RNA/DNA hybrid binding site [nucleotide binding]; other site 302409002315 active site 302409002316 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 302409002317 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 302409002318 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 302409002319 ATP binding site [chemical binding]; other site 302409002320 putative Mg++ binding site [ion binding]; other site 302409002321 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 302409002322 nucleotide binding region [chemical binding]; other site 302409002323 ATP-binding site [chemical binding]; other site 302409002324 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 302409002325 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 302409002326 Lumazine binding domain; Region: Lum_binding; pfam00677 302409002327 Lumazine binding domain; Region: Lum_binding; pfam00677 302409002328 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 302409002329 FMN binding site [chemical binding]; other site 302409002330 substrate binding site [chemical binding]; other site 302409002331 putative catalytic residue [active] 302409002332 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 302409002333 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 302409002334 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 302409002335 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 302409002336 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 302409002337 catalytic residues [active] 302409002338 preprotein translocase subunit SecB; Validated; Region: PRK05751 302409002339 SecA binding site; other site 302409002340 Preprotein binding site; other site 302409002341 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 302409002342 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 302409002343 thymidylate kinase; Validated; Region: tmk; PRK00698 302409002344 TMP-binding site; other site 302409002345 ATP-binding site [chemical binding]; other site 302409002346 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 302409002347 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 302409002348 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 302409002349 ATP-NAD kinase; Region: NAD_kinase; pfam01513 302409002350 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 302409002351 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 302409002352 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 302409002353 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 302409002354 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 302409002355 active site 302409002356 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 302409002357 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 302409002358 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 302409002359 tetramer interface [polypeptide binding]; other site 302409002360 TPP-binding site [chemical binding]; other site 302409002361 heterodimer interface [polypeptide binding]; other site 302409002362 phosphorylation loop region [posttranslational modification] 302409002363 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 302409002364 VirB7 interaction site; other site 302409002365 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 302409002366 catalytic residues [active] 302409002367 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 302409002368 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 302409002369 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 302409002370 FeS/SAM binding site; other site 302409002371 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 302409002372 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 302409002373 Membrane transport protein; Region: Mem_trans; cl09117 302409002374 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 302409002375 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 302409002376 S-adenosylmethionine binding site [chemical binding]; other site 302409002377 SurA N-terminal domain; Region: SurA_N_3; cl07813 302409002378 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 302409002379 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 302409002380 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 302409002381 active site 302409002382 HIGH motif; other site 302409002383 nucleotide binding site [chemical binding]; other site 302409002384 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 302409002385 active site 302409002386 KMSKS motif; other site 302409002387 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 302409002388 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 302409002389 ThiS interaction site; other site 302409002390 putative active site [active] 302409002391 tetramer interface [polypeptide binding]; other site 302409002392 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 302409002393 thiS-thiF/thiG interaction site; other site 302409002394 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 302409002395 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 302409002396 DnaJ chaperone protein; Provisional; Region: PTZ00100 302409002397 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 302409002398 HSP70 interaction site [polypeptide binding]; other site 302409002399 transcription termination factor Rho; Provisional; Region: rho; PRK09376 302409002400 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 302409002401 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 302409002402 RNA binding site [nucleotide binding]; other site 302409002403 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 302409002404 multimer interface [polypeptide binding]; other site 302409002405 Walker A motif; other site 302409002406 ATP binding site [chemical binding]; other site 302409002407 Walker B motif; other site 302409002408 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 302409002409 active site 302409002410 HslU subunit interaction site [polypeptide binding]; other site 302409002411 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 302409002412 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 302409002413 Walker A motif; other site 302409002414 ATP binding site [chemical binding]; other site 302409002415 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 302409002416 Walker B motif; other site 302409002417 arginine finger; other site 302409002418 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 302409002419 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 302409002420 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 302409002421 S-adenosylmethionine binding site [chemical binding]; other site 302409002422 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 302409002423 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 302409002424 active site 302409002425 HIGH motif; other site 302409002426 KMSKS motif; other site 302409002427 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 302409002428 tRNA binding surface [nucleotide binding]; other site 302409002429 anticodon binding site; other site 302409002430 aspartate kinase; Reviewed; Region: PRK06635 302409002431 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 302409002432 putative nucleotide binding site [chemical binding]; other site 302409002433 putative catalytic residues [active] 302409002434 putative Mg ion binding site [ion binding]; other site 302409002435 putative aspartate binding site [chemical binding]; other site 302409002436 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 302409002437 putative allosteric regulatory site; other site 302409002438 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 302409002439 putative allosteric regulatory residue; other site 302409002440 cytochrome c oxidase subunit II; Validated; Region: COX2; MTH00023 302409002441 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 302409002442 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 302409002443 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 302409002444 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 302409002445 Subunit I/III interface [polypeptide binding]; other site 302409002446 D-pathway; other site 302409002447 Subunit I/VIIc interface [polypeptide binding]; other site 302409002448 Subunit I/IV interface [polypeptide binding]; other site 302409002449 Subunit I/II interface [polypeptide binding]; other site 302409002450 Low-spin heme (heme a) binding site [chemical binding]; other site 302409002451 Subunit I/VIIa interface [polypeptide binding]; other site 302409002452 Subunit I/VIa interface [polypeptide binding]; other site 302409002453 Dimer interface; other site 302409002454 Putative water exit pathway; other site 302409002455 Binuclear center (heme a3/CuB) [ion binding]; other site 302409002456 K-pathway; other site 302409002457 Subunit I/Vb interface [polypeptide binding]; other site 302409002458 Putative proton exit pathway; other site 302409002459 Subunit I/VIb interface; other site 302409002460 Subunit I/VIc interface [polypeptide binding]; other site 302409002461 Electron transfer pathway; other site 302409002462 Subunit I/VIIIb interface [polypeptide binding]; other site 302409002463 Subunit I/VIIb interface [polypeptide binding]; other site 302409002464 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 302409002465 UbiA prenyltransferase family; Region: UbiA; pfam01040 302409002466 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 302409002467 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 302409002468 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 302409002469 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 302409002470 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 302409002471 Preprotein translocase subunit; Region: YajC; pfam02699 302409002472 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 302409002473 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 302409002474 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 302409002475 23S rRNA interface [nucleotide binding]; other site 302409002476 L3 interface [polypeptide binding]; other site 302409002477 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 302409002478 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 302409002479 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 302409002480 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 302409002481 dimer interface [polypeptide binding]; other site 302409002482 substrate binding site [chemical binding]; other site 302409002483 metal binding sites [ion binding]; metal-binding site 302409002484 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 302409002485 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 302409002486 non-specific DNA binding site [nucleotide binding]; other site 302409002487 salt bridge; other site 302409002488 sequence-specific DNA binding site [nucleotide binding]; other site 302409002489 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 302409002490 Predicted transcriptional regulator [Transcription]; Region: COG2932 302409002491 Catalytic site [active] 302409002492 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 302409002493 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 302409002494 active site 302409002495 phosphorylation site [posttranslational modification] 302409002496 intermolecular recognition site; other site 302409002497 dimerization interface [polypeptide binding]; other site 302409002498 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 302409002499 DNA binding site [nucleotide binding] 302409002500 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 302409002501 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 302409002502 catalytic site [active] 302409002503 putative active site [active] 302409002504 putative substrate binding site [chemical binding]; other site 302409002505 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 302409002506 DNA polymerase III subunit beta; Validated; Region: PRK05643 302409002507 putative DNA binding surface [nucleotide binding]; other site 302409002508 dimer interface [polypeptide binding]; other site 302409002509 beta-clamp/clamp loader binding surface; other site 302409002510 beta-clamp/translesion DNA polymerase binding surface; other site 302409002511 Domain of unknown function DUF59; Region: DUF59; pfam01883 302409002512 septum site-determining protein MinD; Region: minD_bact; TIGR01968 302409002513 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 302409002514 Walker A motif; other site 302409002515 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 302409002516 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 302409002517 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 302409002518 active site 302409002519 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 302409002520 aconitate hydratase; Validated; Region: PRK09277 302409002521 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 302409002522 substrate binding site [chemical binding]; other site 302409002523 ligand binding site [chemical binding]; other site 302409002524 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 302409002525 substrate binding site [chemical binding]; other site 302409002526 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 302409002527 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 302409002528 ATP-grasp domain; Region: ATP-grasp; pfam02222 302409002529 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 302409002530 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 302409002531 TrbC/VIRB2 family; Region: TrbC; pfam04956 302409002532 TrbC/VIRB2 family; Region: TrbC; pfam04956 302409002533 TrbC/VIRB2 family; Region: TrbC; pfam04956 302409002534 TrbC/VIRB2 family; Region: TrbC; pfam04956 302409002535 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 302409002536 HflK protein; Region: hflK; TIGR01933 302409002537 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 302409002538 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 302409002539 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 302409002540 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 302409002541 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 302409002542 protein binding site [polypeptide binding]; other site 302409002543 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 302409002544 protein binding site [polypeptide binding]; other site 302409002545 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 302409002546 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 302409002547 ribonuclease III; Reviewed; Region: rnc; PRK00102 302409002548 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 302409002549 dimerization interface [polypeptide binding]; other site 302409002550 active site 302409002551 metal binding site [ion binding]; metal-binding site 302409002552 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 302409002553 dsRNA binding site [nucleotide binding]; other site 302409002554 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 302409002555 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 302409002556 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 302409002557 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 302409002558 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 302409002559 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 302409002560 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 302409002561 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 302409002562 lipoprotein signal peptidase; Provisional; Region: PRK14787 302409002563 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 302409002564 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 302409002565 active site 302409002566 Riboflavin kinase; Region: Flavokinase; smart00904 302409002567 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 302409002568 GSH binding site [chemical binding]; other site 302409002569 catalytic residues [active] 302409002570 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 302409002571 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 302409002572 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 302409002573 active site 302409002574 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 302409002575 active site 302409002576 Protein of unknown function (DUF3514); Region: DUF3514; pfam12027 302409002577 Protein of unknown function (DUF3514); Region: DUF3514; pfam12027 302409002578 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 302409002579 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 302409002580 E3 interaction surface; other site 302409002581 lipoyl attachment site [posttranslational modification]; other site 302409002582 e3 binding domain; Region: E3_binding; pfam02817 302409002583 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 302409002584 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 302409002585 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 302409002586 trimer interface [polypeptide binding]; other site 302409002587 putative metal binding site [ion binding]; other site 302409002588 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 302409002589 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 302409002590 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 302409002591 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 302409002592 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 302409002593 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 302409002594 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 302409002595 active site 302409002596 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 302409002597 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 302409002598 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 302409002599 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 302409002600 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 302409002601 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 302409002602 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 302409002603 Surface antigen; Region: Bac_surface_Ag; pfam01103 302409002604 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 302409002605 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 302409002606 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 302409002607 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 302409002608 purine monophosphate binding site [chemical binding]; other site 302409002609 dimer interface [polypeptide binding]; other site 302409002610 putative catalytic residues [active] 302409002611 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 302409002612 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 302409002613 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 302409002614 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 302409002615 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 302409002616 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 302409002617 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 302409002618 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 302409002619 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 302409002620 secreted effector protein PipB2; Provisional; Region: PRK15196 302409002621 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 302409002622 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 302409002623 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 302409002624 Protein of unknown function (DUF3514); Region: DUF3514; pfam12027 302409002625 Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner; Region: G1PDH; cd08175 302409002626 active site 302409002627 metal binding site [ion binding]; metal-binding site 302409002628 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 302409002629 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 302409002630 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 302409002631 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 302409002632 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 302409002633 cell division protein FtsA; Region: ftsA; TIGR01174 302409002634 Cell division protein FtsA; Region: FtsA; smart00842 302409002635 Cell division protein FtsA; Region: FtsA; pfam14450 302409002636 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 302409002637 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 302409002638 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 302409002639 Ligand Binding Site [chemical binding]; other site 302409002640 FtsH Extracellular; Region: FtsH_ext; pfam06480 302409002641 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 302409002642 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 302409002643 Walker A motif; other site 302409002644 ATP binding site [chemical binding]; other site 302409002645 Walker B motif; other site 302409002646 arginine finger; other site 302409002647 Peptidase family M41; Region: Peptidase_M41; pfam01434 302409002648 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 302409002649 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 302409002650 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 302409002651 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 302409002652 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 302409002653 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 302409002654 ATP binding site [chemical binding]; other site 302409002655 substrate interface [chemical binding]; other site 302409002656 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 302409002657 active site 302409002658 recombinase A; Provisional; Region: recA; PRK09354 302409002659 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 302409002660 hexamer interface [polypeptide binding]; other site 302409002661 Walker A motif; other site 302409002662 ATP binding site [chemical binding]; other site 302409002663 Walker B motif; other site 302409002664 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 302409002665 AAA domain; Region: AAA_26; pfam13500 302409002666 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 302409002667 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 302409002668 isocitrate dehydrogenase; Validated; Region: PRK09222 302409002669 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 302409002670 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 302409002671 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 302409002672 DHH family; Region: DHH; pfam01368 302409002673 DHHA1 domain; Region: DHHA1; pfam02272 302409002674 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 302409002675 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 302409002676 active site 302409002677 NTP binding site [chemical binding]; other site 302409002678 metal binding triad [ion binding]; metal-binding site 302409002679 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 302409002680 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 302409002681 active site 302409002682 multimer interface [polypeptide binding]; other site 302409002683 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 302409002684 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 302409002685 non-specific DNA binding site [nucleotide binding]; other site 302409002686 salt bridge; other site 302409002687 sequence-specific DNA binding site [nucleotide binding]; other site 302409002688 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002689 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002690 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002691 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002692 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002693 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002694 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002695 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002696 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002697 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002698 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002699 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002700 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002701 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002702 Surface antigen; Region: Surface_Ag_2; pfam01617 302409002703 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 302409002704 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 302409002705 DEAD/DEAH box helicase; Region: DEAD; pfam00270 302409002706 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 302409002707 SEC-C motif; Region: SEC-C; pfam02810 302409002708 cell division protein FtsZ; Validated; Region: PRK09330 302409002709 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 302409002710 nucleotide binding site [chemical binding]; other site 302409002711 SulA interaction site; other site 302409002712 EVE domain; Region: EVE; pfam01878 302409002713 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 302409002714 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 302409002715 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 302409002716 P-loop; other site 302409002717 Magnesium ion binding site [ion binding]; other site 302409002718 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 302409002719 Magnesium ion binding site [ion binding]; other site 302409002720 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 302409002721 ParB-like nuclease domain; Region: ParB; smart00470 302409002722 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14592 302409002723 RimM N-terminal domain; Region: RimM; pfam01782 302409002724 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 302409002725 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 302409002726 Competence-damaged protein; Region: CinA; pfam02464 302409002727 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 302409002728 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 302409002729 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 302409002730 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 302409002731 active site 302409002732 dimer interface [polypeptide binding]; other site 302409002733 motif 1; other site 302409002734 motif 2; other site 302409002735 motif 3; other site 302409002736 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 302409002737 anticodon binding site; other site 302409002738 Translation initiation factor 3 (IF-3) [Translation, ribosomal structure and biogenesis]; Region: InfC; COG0290 302409002739 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 302409002740 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 302409002741 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 302409002742 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 302409002743 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 302409002744 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 302409002745 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 302409002746 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 302409002747 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 302409002748 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 302409002749 conserved cys residue [active] 302409002750 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 302409002751 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 302409002752 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14964 302409002753 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 302409002754 Walker A motif; other site 302409002755 ATP binding site [chemical binding]; other site 302409002756 Walker B motif; other site 302409002757 arginine finger; other site 302409002758 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 302409002759 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 302409002760 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 302409002761 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 302409002762 S-adenosylmethionine synthetase; Validated; Region: PRK05250 302409002763 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 302409002764 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 302409002765 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 302409002766 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 302409002767 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 302409002768 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 302409002769 motif 1; other site 302409002770 dimer interface [polypeptide binding]; other site 302409002771 active site 302409002772 motif 2; other site 302409002773 motif 3; other site 302409002774 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 302409002775 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 302409002776 chaperone protein DnaJ; Provisional; Region: PRK10767 302409002777 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 302409002778 HSP70 interaction site [polypeptide binding]; other site 302409002779 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 302409002780 substrate binding site [polypeptide binding]; other site 302409002781 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 302409002782 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 302409002783 dimer interface [polypeptide binding]; other site