-- dump date 20140618_204114 -- class Genbank::misc_feature -- table misc_feature_note -- id note 574556000001 AIR carboxylase; Region: AIRC; pfam00731 574556000002 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 574556000003 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 574556000004 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 574556000005 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 574556000006 IHF - DNA interface [nucleotide binding]; other site 574556000007 IHF dimer interface [polypeptide binding]; other site 574556000008 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 574556000009 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 574556000010 DNA binding residues [nucleotide binding] 574556000011 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 574556000012 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 574556000013 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 574556000014 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 574556000015 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 574556000016 active site 574556000017 HIGH motif; other site 574556000018 dimer interface [polypeptide binding]; other site 574556000019 KMSKS motif; other site 574556000020 GrpE; Region: GrpE; pfam01025 574556000021 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 574556000022 dimer interface [polypeptide binding]; other site 574556000023 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 574556000024 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 574556000025 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 574556000026 catalytic motif [active] 574556000027 Zn binding site [ion binding]; other site 574556000028 RibD C-terminal domain; Region: RibD_C; cl17279 574556000029 CTP synthetase; Validated; Region: pyrG; PRK05380 574556000030 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 574556000031 Catalytic site [active] 574556000032 active site 574556000033 UTP binding site [chemical binding]; other site 574556000034 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 574556000035 active site 574556000036 putative oxyanion hole; other site 574556000037 catalytic triad [active] 574556000038 Preprotein translocase SecG subunit; Region: SecG; pfam03840 574556000039 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 574556000040 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 574556000041 active site 574556000042 DNA binding site [nucleotide binding] 574556000043 Int/Topo IB signature motif; other site 574556000044 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 574556000045 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 574556000046 Walker A/P-loop; other site 574556000047 ATP binding site [chemical binding]; other site 574556000048 Q-loop/lid; other site 574556000049 ABC transporter signature motif; other site 574556000050 Walker B; other site 574556000051 D-loop; other site 574556000052 H-loop/switch region; other site 574556000053 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 574556000054 Malic enzyme, N-terminal domain; Region: malic; pfam00390 574556000055 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 574556000056 putative NAD(P) binding site [chemical binding]; other site 574556000057 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 574556000058 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12662 574556000059 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 574556000060 TrbC/VIRB2 family; Region: TrbC; pfam04956 574556000061 TrbC/VIRB2 family; Region: TrbC; pfam04956 574556000062 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 574556000063 metabolite-proton symporter; Region: 2A0106; TIGR00883 574556000064 putative substrate translocation pore; other site 574556000065 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 574556000066 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 574556000067 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 574556000068 active site 574556000069 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 574556000070 active site 574556000071 substrate binding site [chemical binding]; other site 574556000072 CoA binding site [chemical binding]; other site 574556000073 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 574556000074 NADP binding site [chemical binding]; other site 574556000075 substrate binding pocket [chemical binding]; other site 574556000076 active site 574556000077 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 574556000078 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 574556000079 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 574556000080 dimer interface [polypeptide binding]; other site 574556000081 motif 1; other site 574556000082 active site 574556000083 motif 2; other site 574556000084 motif 3; other site 574556000085 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 574556000086 23S rRNA binding site [nucleotide binding]; other site 574556000087 L21 binding site [polypeptide binding]; other site 574556000088 L13 binding site [polypeptide binding]; other site 574556000089 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 574556000090 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 574556000091 transcription termination factor Rho; Provisional; Region: rho; PRK09376 574556000092 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 574556000093 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 574556000094 RNA binding site [nucleotide binding]; other site 574556000095 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 574556000096 multimer interface [polypeptide binding]; other site 574556000097 Walker A motif; other site 574556000098 ATP binding site [chemical binding]; other site 574556000099 Walker B motif; other site 574556000100 TrbC/VIRB2 family; Region: TrbC; pfam04956 574556000101 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 574556000102 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 574556000103 S-adenosylmethionine binding site [chemical binding]; other site 574556000104 SurA N-terminal domain; Region: SurA_N_3; cl07813 574556000105 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 574556000106 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 574556000107 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 574556000108 active site 574556000109 HIGH motif; other site 574556000110 nucleotide binding site [chemical binding]; other site 574556000111 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 574556000112 active site 574556000113 KMSKS motif; other site 574556000114 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 574556000115 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 574556000116 ThiS interaction site; other site 574556000117 putative active site [active] 574556000118 tetramer interface [polypeptide binding]; other site 574556000119 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 574556000120 thiS-thiF/thiG interaction site; other site 574556000121 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 574556000122 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 574556000123 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 574556000124 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 574556000125 ATP cone domain; Region: ATP-cone; pfam03477 574556000126 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; pfam05071 574556000127 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 574556000128 mce related protein; Region: MCE; pfam02470 574556000129 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000130 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000131 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 574556000132 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 574556000133 5S rRNA interface [nucleotide binding]; other site 574556000134 CTC domain interface [polypeptide binding]; other site 574556000135 L16 interface [polypeptide binding]; other site 574556000136 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 574556000137 putative active site [active] 574556000138 catalytic residue [active] 574556000139 amidophosphoribosyltransferase; Provisional; Region: PRK09123 574556000140 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 574556000141 active site 574556000142 tetramer interface [polypeptide binding]; other site 574556000143 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574556000144 active site 574556000145 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 574556000146 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 574556000147 putative NAD(P) binding site [chemical binding]; other site 574556000148 active site 574556000149 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 574556000150 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 574556000151 ssDNA binding site; other site 574556000152 generic binding surface II; other site 574556000153 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 574556000154 ATP binding site [chemical binding]; other site 574556000155 putative Mg++ binding site [ion binding]; other site 574556000156 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 574556000157 nucleotide binding region [chemical binding]; other site 574556000158 ATP-binding site [chemical binding]; other site 574556000159 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 574556000160 Flavoprotein; Region: Flavoprotein; pfam02441 574556000161 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 574556000162 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 574556000163 trmE is a tRNA modification GTPase; Region: trmE; cd04164 574556000164 G1 box; other site 574556000165 GTP/Mg2+ binding site [chemical binding]; other site 574556000166 Switch I region; other site 574556000167 G2 box; other site 574556000168 Switch II region; other site 574556000169 G3 box; other site 574556000170 G4 box; other site 574556000171 G5 box; other site 574556000172 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 574556000173 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 574556000174 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 574556000175 trimer interface [polypeptide binding]; other site 574556000176 active site 574556000177 substrate binding site [chemical binding]; other site 574556000178 CoA binding site [chemical binding]; other site 574556000179 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 574556000180 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 574556000181 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 574556000182 generic binding surface II; other site 574556000183 generic binding surface I; other site 574556000184 Phosphoglycerate kinase; Region: PGK; pfam00162 574556000185 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 574556000186 substrate binding site [chemical binding]; other site 574556000187 hinge regions; other site 574556000188 ADP binding site [chemical binding]; other site 574556000189 catalytic site [active] 574556000190 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 574556000191 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 574556000192 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 574556000193 Tetratricopeptide repeat; Region: TPR_16; pfam13432 574556000194 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 574556000195 TPR motif; other site 574556000196 binding surface 574556000197 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 574556000198 Methyltransferase domain; Region: Methyltransf_23; pfam13489 574556000199 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 574556000200 S-adenosylmethionine binding site [chemical binding]; other site 574556000201 GTP cyclohydrolase; Provisional; Region: PRK08815 574556000202 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 574556000203 dimerization interface [polypeptide binding]; other site 574556000204 active site 574556000205 VirB8 protein; Region: VirB8; pfam04335 574556000206 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 574556000207 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 574556000208 VirB7 interaction site; other site 574556000209 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 574556000210 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 574556000211 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 574556000212 Walker A motif; other site 574556000213 hexamer interface [polypeptide binding]; other site 574556000214 ATP binding site [chemical binding]; other site 574556000215 Walker B motif; other site 574556000216 type IV secretion system component VirD4; Provisional; Region: PRK13897 574556000217 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 574556000218 Walker A motif; other site 574556000219 ATP binding site [chemical binding]; other site 574556000220 Walker B motif; other site 574556000221 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 574556000222 ketol-acid reductoisomerase; Provisional; Region: PRK05479 574556000223 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 574556000224 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 574556000225 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 574556000226 4Fe-4S binding domain; Region: Fer4; pfam00037 574556000227 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 574556000228 quinolinate synthetase; Provisional; Region: PRK09375 574556000229 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 574556000230 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 574556000231 S-adenosylmethionine binding site [chemical binding]; other site 574556000232 Phage-related protein [Function unknown]; Region: COG4695 574556000233 Phage portal protein; Region: Phage_portal; pfam04860 574556000234 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 574556000235 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 574556000236 Transporter associated domain; Region: CorC_HlyC; smart01091 574556000237 uroporphyrinogen decarboxylase; Validated; Region: hemE; PRK00115 574556000238 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 574556000239 Subunit III/VIIa interface [polypeptide binding]; other site 574556000240 Phospholipid binding site [chemical binding]; other site 574556000241 Subunit I/III interface [polypeptide binding]; other site 574556000242 Subunit III/VIb interface [polypeptide binding]; other site 574556000243 Subunit III/VIa interface; other site 574556000244 Subunit III/Vb interface [polypeptide binding]; other site 574556000245 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 574556000246 active site 574556000247 putative DNA-binding cleft [nucleotide binding]; other site 574556000248 dimer interface [polypeptide binding]; other site 574556000249 membrane protein; Provisional; Region: PRK14396 574556000250 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 574556000251 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 574556000252 dimerization interface [polypeptide binding]; other site 574556000253 active site 574556000254 chaperone protein DnaJ; Provisional; Region: PRK10767 574556000255 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 574556000256 HSP70 interaction site [polypeptide binding]; other site 574556000257 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 574556000258 substrate binding site [polypeptide binding]; other site 574556000259 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 574556000260 Zn binding sites [ion binding]; other site 574556000261 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 574556000262 dimer interface [polypeptide binding]; other site 574556000263 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 574556000264 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 574556000265 motif 1; other site 574556000266 dimer interface [polypeptide binding]; other site 574556000267 active site 574556000268 motif 2; other site 574556000269 motif 3; other site 574556000270 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 574556000271 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 574556000272 S-adenosylmethionine synthetase; Validated; Region: PRK05250 574556000273 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 574556000274 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 574556000275 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 574556000276 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 574556000277 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 574556000278 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 574556000279 conserved cys residue [active] 574556000280 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 574556000281 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 574556000282 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 574556000283 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14964 574556000284 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 574556000285 Walker A motif; other site 574556000286 ATP binding site [chemical binding]; other site 574556000287 Walker B motif; other site 574556000288 arginine finger; other site 574556000289 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 574556000290 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 574556000291 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 574556000292 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 574556000293 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 574556000294 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 574556000295 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 574556000296 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 574556000297 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 574556000298 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 574556000299 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 574556000300 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 574556000301 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 574556000302 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 574556000303 active site 574556000304 dimer interface [polypeptide binding]; other site 574556000305 motif 1; other site 574556000306 motif 2; other site 574556000307 motif 3; other site 574556000308 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 574556000309 anticodon binding site; other site 574556000310 Competence-damaged protein; Region: CinA; pfam02464 574556000311 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 574556000312 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 574556000313 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14592 574556000314 RimM N-terminal domain; Region: RimM; pfam01782 574556000315 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 574556000316 ParB-like nuclease domain; Region: ParBc; pfam02195 574556000317 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 574556000318 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 574556000319 P-loop; other site 574556000320 Magnesium ion binding site [ion binding]; other site 574556000321 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 574556000322 Magnesium ion binding site [ion binding]; other site 574556000323 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 574556000324 cell division protein FtsZ; Validated; Region: PRK09330 574556000325 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 574556000326 nucleotide binding site [chemical binding]; other site 574556000327 SulA interaction site; other site 574556000328 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000329 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000330 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000331 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 574556000332 TrbC/VIRB2 family; Region: TrbC; pfam04956 574556000333 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 574556000334 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 574556000335 excinuclease ABC subunit B; Provisional; Region: PRK05298 574556000336 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 574556000337 ATP binding site [chemical binding]; other site 574556000338 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 574556000339 nucleotide binding region [chemical binding]; other site 574556000340 ATP-binding site [chemical binding]; other site 574556000341 Ultra-violet resistance protein B; Region: UvrB; pfam12344 574556000342 outer membrane protein RatB; Provisional; Region: PRK15314 574556000343 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 574556000344 Fe-S cluster binding site [ion binding]; other site 574556000345 active site 574556000346 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 574556000347 active site 574556000348 catalytic residues [active] 574556000349 metal binding site [ion binding]; metal-binding site 574556000350 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 574556000351 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 574556000352 putative acyl-acceptor binding pocket; other site 574556000353 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 574556000354 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 574556000355 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 574556000356 MviN-like protein; Region: MVIN; pfam03023 574556000357 DNA packaging tegument protein UL25; Provisional; Region: PHA03249 574556000358 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000359 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000360 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000361 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000362 recombination protein F; Reviewed; Region: recF; PRK00064 574556000363 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574556000364 Walker A/P-loop; other site 574556000365 ATP binding site [chemical binding]; other site 574556000366 Q-loop/lid; other site 574556000367 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574556000368 ABC transporter signature motif; other site 574556000369 Walker B; other site 574556000370 D-loop; other site 574556000371 H-loop/switch region; other site 574556000372 ornithine carbamoyltransferase; Provisional; Region: PRK00779 574556000373 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 574556000374 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 574556000375 DNA polymerase I; Provisional; Region: PRK05755 574556000376 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 574556000377 active site 574556000378 metal binding site 1 [ion binding]; metal-binding site 574556000379 putative 5' ssDNA interaction site; other site 574556000380 metal binding site 3; metal-binding site 574556000381 metal binding site 2 [ion binding]; metal-binding site 574556000382 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 574556000383 putative DNA binding site [nucleotide binding]; other site 574556000384 putative metal binding site [ion binding]; other site 574556000385 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 574556000386 active site 574556000387 catalytic site [active] 574556000388 substrate binding site [chemical binding]; other site 574556000389 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 574556000390 active site 574556000391 DNA binding site [nucleotide binding] 574556000392 catalytic site [active] 574556000393 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 574556000394 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 574556000395 substrate binding site [chemical binding]; other site 574556000396 hexamer interface [polypeptide binding]; other site 574556000397 metal binding site [ion binding]; metal-binding site 574556000398 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 574556000399 Permease; Region: Permease; pfam02405 574556000400 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 574556000401 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 574556000402 Walker A/P-loop; other site 574556000403 ATP binding site [chemical binding]; other site 574556000404 Q-loop/lid; other site 574556000405 ABC transporter signature motif; other site 574556000406 Walker B; other site 574556000407 D-loop; other site 574556000408 H-loop/switch region; other site 574556000409 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 574556000410 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 574556000411 substrate binding pocket [chemical binding]; other site 574556000412 chain length determination region; other site 574556000413 substrate-Mg2+ binding site; other site 574556000414 catalytic residues [active] 574556000415 aspartate-rich region 1; other site 574556000416 active site lid residues [active] 574556000417 aspartate-rich region 2; other site 574556000418 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 574556000419 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 574556000420 Mg++ binding site [ion binding]; other site 574556000421 putative catalytic motif [active] 574556000422 putative substrate binding site [chemical binding]; other site 574556000423 glutamine synthetase, type I; Region: GlnA; TIGR00653 574556000424 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 574556000425 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 574556000426 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 574556000427 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 574556000428 active site 574556000429 HIGH motif; other site 574556000430 dimer interface [polypeptide binding]; other site 574556000431 KMSKS motif; other site 574556000432 S4 RNA-binding domain; Region: S4; smart00363 574556000433 RNA binding surface [nucleotide binding]; other site 574556000434 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 574556000435 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 574556000436 substrate-cofactor binding pocket; other site 574556000437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574556000438 catalytic residue [active] 574556000439 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 574556000440 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 574556000441 Protein export membrane protein; Region: SecD_SecF; cl14618 574556000442 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 574556000443 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 574556000444 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 574556000445 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 574556000446 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 574556000447 putative active site; other site 574556000448 catalytic residue [active] 574556000449 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 574556000450 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 574556000451 E3 interaction surface; other site 574556000452 lipoyl attachment site [posttranslational modification]; other site 574556000453 e3 binding domain; Region: E3_binding; pfam02817 574556000454 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 574556000455 GMP synthase; Reviewed; Region: guaA; PRK00074 574556000456 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 574556000457 AMP/PPi binding site [chemical binding]; other site 574556000458 candidate oxyanion hole; other site 574556000459 catalytic triad [active] 574556000460 potential glutamine specificity residues [chemical binding]; other site 574556000461 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 574556000462 ATP Binding subdomain [chemical binding]; other site 574556000463 Ligand Binding sites [chemical binding]; other site 574556000464 Dimerization subdomain; other site 574556000465 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 574556000466 Citrate synthase; Region: Citrate_synt; pfam00285 574556000467 oxalacetate binding site [chemical binding]; other site 574556000468 citrylCoA binding site [chemical binding]; other site 574556000469 coenzyme A binding site [chemical binding]; other site 574556000470 catalytic triad [active] 574556000471 Glutamate-cysteine ligase; Region: GshA; pfam08886 574556000472 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 574556000473 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 574556000474 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 574556000475 FtsX-like permease family; Region: FtsX; pfam02687 574556000476 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 574556000477 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 574556000478 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 574556000479 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 574556000480 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 574556000481 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 574556000482 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 574556000483 beta subunit interaction interface [polypeptide binding]; other site 574556000484 Walker A motif; other site 574556000485 ATP binding site [chemical binding]; other site 574556000486 Walker B motif; other site 574556000487 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 574556000488 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 574556000489 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 574556000490 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 574556000491 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 574556000492 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 574556000493 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 574556000494 SmpB-tmRNA interface; other site 574556000495 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 574556000496 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 574556000497 active site 574556000498 HIGH motif; other site 574556000499 nucleotide binding site [chemical binding]; other site 574556000500 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 574556000501 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 574556000502 active site 574556000503 KMSKS motif; other site 574556000504 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 574556000505 tRNA binding surface [nucleotide binding]; other site 574556000506 anticodon binding site; other site 574556000507 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 574556000508 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 574556000509 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 574556000510 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 574556000511 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000512 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000513 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000514 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000515 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000516 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000517 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000518 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000519 Surface antigen; Region: Surface_Ag_2; pfam01617 574556000520 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 574556000521 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 574556000522 non-specific DNA binding site [nucleotide binding]; other site 574556000523 salt bridge; other site 574556000524 sequence-specific DNA binding site [nucleotide binding]; other site 574556000525 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 574556000526 active site 574556000527 multimer interface [polypeptide binding]; other site 574556000528 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 574556000529 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 574556000530 active site 574556000531 NTP binding site [chemical binding]; other site 574556000532 metal binding triad [ion binding]; metal-binding site 574556000533 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 574556000534 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 574556000535 DHH family; Region: DHH; pfam01368 574556000536 DHHA1 domain; Region: DHHA1; pfam02272 574556000537 isocitrate dehydrogenase; Validated; Region: PRK09222 574556000538 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 574556000539 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 574556000540 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 574556000541 P loop; other site 574556000542 GTP binding site [chemical binding]; other site 574556000543 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 574556000544 AAA domain; Region: AAA_26; pfam13500 574556000545 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 574556000546 CcmB protein; Region: CcmB; cl17444 574556000547 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 574556000548 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 574556000549 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 574556000550 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 574556000551 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 574556000552 SEC-C motif; Region: SEC-C; pfam02810 574556000553 FtsH Extracellular; Region: FtsH_ext; pfam06480 574556000554 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 574556000555 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 574556000556 Walker A motif; other site 574556000557 ATP binding site [chemical binding]; other site 574556000558 Walker B motif; other site 574556000559 arginine finger; other site 574556000560 Peptidase family M41; Region: Peptidase_M41; pfam01434 574556000561 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 574556000562 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 574556000563 Ligand Binding Site [chemical binding]; other site 574556000564 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 574556000565 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 574556000566 cell division protein FtsA; Region: ftsA; TIGR01174 574556000567 Cell division protein FtsA; Region: FtsA; smart00842 574556000568 Cell division protein FtsA; Region: FtsA; pfam14450 574556000569 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 574556000570 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 574556000571 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 574556000572 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 574556000573 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 574556000574 active site 574556000575 metal binding site [ion binding]; metal-binding site 574556000576 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 574556000577 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 574556000578 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 574556000579 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 574556000580 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 574556000581 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 574556000582 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 574556000583 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 574556000584 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 574556000585 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 574556000586 N-acetyl-D-glucosamine binding site [chemical binding]; other site 574556000587 catalytic residue [active] 574556000588 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 574556000589 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 574556000590 Putative proton exit pathway; other site 574556000591 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 574556000592 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 574556000593 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 574556000594 purine monophosphate binding site [chemical binding]; other site 574556000595 dimer interface [polypeptide binding]; other site 574556000596 putative catalytic residues [active] 574556000597 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 574556000598 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 574556000599 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 574556000600 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 574556000601 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 574556000602 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 574556000603 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 574556000604 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 574556000605 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 574556000606 Surface antigen; Region: Bac_surface_Ag; pfam01103 574556000607 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 574556000608 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 574556000609 active site 574556000610 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 574556000611 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 574556000612 putative substrate binding region [chemical binding]; other site 574556000613 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 574556000614 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 574556000615 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 574556000616 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 574556000617 DsbD alpha interface [polypeptide binding]; other site 574556000618 catalytic residues [active] 574556000619 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 574556000620 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 574556000621 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 574556000622 pantoate--beta-alanine ligase; Region: panC; TIGR00018 574556000623 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 574556000624 active site 574556000625 nucleotide binding site [chemical binding]; other site 574556000626 HIGH motif; other site 574556000627 KMSKS motif; other site 574556000628 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 574556000629 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 574556000630 trimer interface [polypeptide binding]; other site 574556000631 putative metal binding site [ion binding]; other site 574556000632 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 574556000633 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 574556000634 E3 interaction surface; other site 574556000635 lipoyl attachment site [posttranslational modification]; other site 574556000636 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 574556000637 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 574556000638 active site 574556000639 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 574556000640 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 574556000641 S-adenosylmethionine binding site [chemical binding]; other site 574556000642 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 574556000643 GSH binding site [chemical binding]; other site 574556000644 catalytic residues [active] 574556000645 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 574556000646 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 574556000647 active site 574556000648 Riboflavin kinase; Region: Flavokinase; smart00904 574556000649 lipoprotein signal peptidase; Provisional; Region: PRK14775 574556000650 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 574556000651 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 574556000652 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 574556000653 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 574556000654 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 574556000655 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 574556000656 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 574556000657 ribonuclease III; Reviewed; Region: rnc; PRK00102 574556000658 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 574556000659 dimerization interface [polypeptide binding]; other site 574556000660 active site 574556000661 metal binding site [ion binding]; metal-binding site 574556000662 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 574556000663 dsRNA binding site [nucleotide binding]; other site 574556000664 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 574556000665 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 574556000666 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 574556000667 protein binding site [polypeptide binding]; other site 574556000668 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 574556000669 protein binding site [polypeptide binding]; other site 574556000670 HflC protein; Region: hflC; TIGR01932 574556000671 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 574556000672 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 574556000673 HflK protein; Region: hflK; TIGR01933 574556000674 TrbC/VIRB2 family; Region: TrbC; pfam04956 574556000675 TrbC/VIRB2 family; Region: TrbC; pfam04956 574556000676 TrbC/VIRB2 family; Region: TrbC; pfam04956 574556000677 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 574556000678 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 574556000679 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 574556000680 ATP-grasp domain; Region: ATP-grasp; pfam02222 574556000681 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 574556000682 aconitate hydratase; Validated; Region: PRK09277 574556000683 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 574556000684 substrate binding site [chemical binding]; other site 574556000685 ligand binding site [chemical binding]; other site 574556000686 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 574556000687 substrate binding site [chemical binding]; other site 574556000688 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 574556000689 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 574556000690 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 574556000691 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574556000692 active site 574556000693 Domain of unknown function DUF59; Region: DUF59; pfam01883 574556000694 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 574556000695 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 574556000696 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 574556000697 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 574556000698 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 574556000699 23S rRNA interface [nucleotide binding]; other site 574556000700 L3 interface [polypeptide binding]; other site 574556000701 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 574556000702 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 574556000703 dimer interface [polypeptide binding]; other site 574556000704 substrate binding site [chemical binding]; other site 574556000705 metal binding sites [ion binding]; metal-binding site 574556000706 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 574556000707 non-specific DNA binding site [nucleotide binding]; other site 574556000708 salt bridge; other site 574556000709 sequence-specific DNA binding site [nucleotide binding]; other site 574556000710 Predicted transcriptional regulator [Transcription]; Region: COG2932 574556000711 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 574556000712 Catalytic site [active] 574556000713 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 574556000714 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 574556000715 active site 574556000716 phosphorylation site [posttranslational modification] 574556000717 intermolecular recognition site; other site 574556000718 dimerization interface [polypeptide binding]; other site 574556000719 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 574556000720 DNA binding site [nucleotide binding] 574556000721 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 574556000722 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 574556000723 catalytic site [active] 574556000724 putative active site [active] 574556000725 putative substrate binding site [chemical binding]; other site 574556000726 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 574556000727 DNA polymerase III subunit beta; Validated; Region: PRK05643 574556000728 putative DNA binding surface [nucleotide binding]; other site 574556000729 dimer interface [polypeptide binding]; other site 574556000730 beta-clamp/clamp loader binding surface; other site 574556000731 beta-clamp/translesion DNA polymerase binding surface; other site 574556000732 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 574556000733 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 574556000734 glutaminase active site [active] 574556000735 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 574556000736 dimer interface [polypeptide binding]; other site 574556000737 active site 574556000738 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 574556000739 dimer interface [polypeptide binding]; other site 574556000740 active site 574556000741 Preprotein translocase subunit; Region: YajC; pfam02699 574556000742 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 574556000743 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 574556000744 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 574556000745 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 574556000746 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 574556000747 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 574556000748 UbiA prenyltransferase family; Region: UbiA; pfam01040 574556000749 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 574556000750 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 574556000751 Subunit I/III interface [polypeptide binding]; other site 574556000752 D-pathway; other site 574556000753 Subunit I/VIIc interface [polypeptide binding]; other site 574556000754 Subunit I/IV interface [polypeptide binding]; other site 574556000755 Subunit I/II interface [polypeptide binding]; other site 574556000756 Low-spin heme (heme a) binding site [chemical binding]; other site 574556000757 Subunit I/VIIa interface [polypeptide binding]; other site 574556000758 Subunit I/VIa interface [polypeptide binding]; other site 574556000759 Dimer interface; other site 574556000760 Putative water exit pathway; other site 574556000761 Binuclear center (heme a3/CuB) [ion binding]; other site 574556000762 K-pathway; other site 574556000763 Subunit I/Vb interface [polypeptide binding]; other site 574556000764 Putative proton exit pathway; other site 574556000765 Subunit I/VIb interface; other site 574556000766 Subunit I/VIc interface [polypeptide binding]; other site 574556000767 Electron transfer pathway; other site 574556000768 Subunit I/VIIIb interface [polypeptide binding]; other site 574556000769 Subunit I/VIIb interface [polypeptide binding]; other site 574556000770 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 574556000771 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 574556000772 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 574556000773 aspartate kinase; Reviewed; Region: PRK06635 574556000774 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 574556000775 putative nucleotide binding site [chemical binding]; other site 574556000776 putative catalytic residues [active] 574556000777 putative Mg ion binding site [ion binding]; other site 574556000778 putative aspartate binding site [chemical binding]; other site 574556000779 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 574556000780 putative allosteric regulatory site; other site 574556000781 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 574556000782 putative allosteric regulatory residue; other site 574556000783 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 574556000784 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 574556000785 active site 574556000786 HIGH motif; other site 574556000787 KMSKS motif; other site 574556000788 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 574556000789 tRNA binding surface [nucleotide binding]; other site 574556000790 anticodon binding site; other site 574556000791 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 574556000792 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 574556000793 S-adenosylmethionine binding site [chemical binding]; other site 574556000794 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 574556000795 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 574556000796 Walker A motif; other site 574556000797 ATP binding site [chemical binding]; other site 574556000798 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 574556000799 Walker B motif; other site 574556000800 arginine finger; other site 574556000801 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 574556000802 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 574556000803 active site 574556000804 HslU subunit interaction site [polypeptide binding]; other site 574556000805 transcription termination factor Rho; Provisional; Region: rho; PRK09376 574556000806 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 574556000807 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 574556000808 RNA binding site [nucleotide binding]; other site 574556000809 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 574556000810 multimer interface [polypeptide binding]; other site 574556000811 Walker A motif; other site 574556000812 ATP binding site [chemical binding]; other site 574556000813 Walker B motif; other site 574556000814 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 574556000815 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK14620 574556000816 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 574556000817 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 574556000818 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 574556000819 active site 574556000820 DNA binding site [nucleotide binding] 574556000821 Int/Topo IB signature motif; other site 574556000822 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 574556000823 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 574556000824 dimerization interface [polypeptide binding]; other site 574556000825 putative ATP binding site [chemical binding]; other site 574556000826 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 574556000827 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 574556000828 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 574556000829 Peptidase family M48; Region: Peptidase_M48; cl12018 574556000830 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 574556000831 TPR motif; other site 574556000832 binding surface 574556000833 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 574556000834 catalytic center binding site [active] 574556000835 ATP binding site [chemical binding]; other site 574556000836 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 574556000837 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 574556000838 dimerization interface [polypeptide binding]; other site 574556000839 ATP binding site [chemical binding]; other site 574556000840 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 574556000841 dimerization interface [polypeptide binding]; other site 574556000842 ATP binding site [chemical binding]; other site 574556000843 biotin synthase; Region: bioB; TIGR00433 574556000844 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 574556000845 FeS/SAM binding site; other site 574556000846 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 574556000847 PAS domain; Region: PAS_5; pfam07310 574556000848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 574556000849 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 574556000850 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 574556000851 E3 interaction surface; other site 574556000852 lipoyl attachment site [posttranslational modification]; other site 574556000853 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 574556000854 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 574556000855 putative active site [active] 574556000856 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 574556000857 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 574556000858 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 574556000859 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 574556000860 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 574556000861 putative active site [active] 574556000862 catalytic triad [active] 574556000863 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 574556000864 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 574556000865 active site 574556000866 substrate binding site [chemical binding]; other site 574556000867 cosubstrate binding site; other site 574556000868 catalytic site [active] 574556000869 multifunctional aminopeptidase A; Provisional; Region: PRK00913 574556000870 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 574556000871 interface (dimer of trimers) [polypeptide binding]; other site 574556000872 Substrate-binding/catalytic site; other site 574556000873 Zn-binding sites [ion binding]; other site 574556000874 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 574556000875 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 574556000876 Clp amino terminal domain; Region: Clp_N; pfam02861 574556000877 Clp amino terminal domain; Region: Clp_N; pfam02861 574556000878 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 574556000879 Walker A motif; other site 574556000880 ATP binding site [chemical binding]; other site 574556000881 Walker B motif; other site 574556000882 arginine finger; other site 574556000883 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 574556000884 Walker A motif; other site 574556000885 ATP binding site [chemical binding]; other site 574556000886 Walker B motif; other site 574556000887 arginine finger; other site 574556000888 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 574556000889 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 574556000890 classical (c) SDRs; Region: SDR_c; cd05233 574556000891 NAD(P) binding site [chemical binding]; other site 574556000892 active site 574556000893 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 574556000894 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 574556000895 ring oligomerisation interface [polypeptide binding]; other site 574556000896 ATP/Mg binding site [chemical binding]; other site 574556000897 stacking interactions; other site 574556000898 hinge regions; other site 574556000899 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 574556000900 oligomerisation interface [polypeptide binding]; other site 574556000901 mobile loop; other site 574556000902 roof hairpin; other site 574556000903 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 574556000904 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 574556000905 helix-hairpin-helix signature motif; other site 574556000906 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 574556000907 MPN+ (JAMM) motif; other site 574556000908 Zinc-binding site [ion binding]; other site 574556000909 lipoate-protein ligase B; Provisional; Region: PRK14341 574556000910 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 574556000911 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 574556000912 active site 574556000913 substrate binding site [chemical binding]; other site 574556000914 metal binding site [ion binding]; metal-binding site 574556000915 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 574556000916 dihydroorotase; Validated; Region: pyrC; PRK09357 574556000917 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 574556000918 active site 574556000919 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 574556000920 fumarate hydratase; Reviewed; Region: fumC; PRK00485 574556000921 Class II fumarases; Region: Fumarase_classII; cd01362 574556000922 active site 574556000923 tetramer interface [polypeptide binding]; other site 574556000924 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 574556000925 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 574556000926 ATP-grasp domain; Region: ATP-grasp_4; cl17255 574556000927 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 574556000928 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 574556000929 ATP-grasp domain; Region: ATP-grasp_4; cl17255 574556000930 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 574556000931 IMP binding site; other site 574556000932 dimer interface [polypeptide binding]; other site 574556000933 interdomain contacts; other site 574556000934 partial ornithine binding site; other site 574556000935 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 574556000936 dihydropteroate synthase; Region: DHPS; TIGR01496 574556000937 substrate binding pocket [chemical binding]; other site 574556000938 dimer interface [polypeptide binding]; other site 574556000939 inhibitor binding site; inhibition site 574556000940 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 574556000941 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 574556000942 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 574556000943 Walker A/P-loop; other site 574556000944 ATP binding site [chemical binding]; other site 574556000945 Q-loop/lid; other site 574556000946 ABC transporter signature motif; other site 574556000947 Walker B; other site 574556000948 D-loop; other site 574556000949 H-loop/switch region; other site 574556000950 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 574556000951 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 574556000952 NADP binding site [chemical binding]; other site 574556000953 dimer interface [polypeptide binding]; other site 574556000954 Part of AAA domain; Region: AAA_19; pfam13245 574556000955 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 574556000956 Family description; Region: UvrD_C_2; pfam13538 574556000957 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 574556000958 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 574556000959 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 574556000960 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 574556000961 Predicted ATPase [General function prediction only]; Region: COG1485 574556000962 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 574556000963 Walker A motif; other site 574556000964 ATP binding site [chemical binding]; other site 574556000965 Walker B motif; other site 574556000966 ferrochelatase; Reviewed; Region: hemH; PRK00035 574556000967 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 574556000968 C-terminal domain interface [polypeptide binding]; other site 574556000969 active site 574556000970 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 574556000971 active site 574556000972 N-terminal domain interface [polypeptide binding]; other site 574556000973 Cell division protein ZapA; Region: ZapA; pfam05164 574556000974 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 574556000975 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; cl00257 574556000976 IHF dimer interface [polypeptide binding]; other site 574556000977 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; cl00257 574556000978 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 574556000979 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 574556000980 tandem repeat interface [polypeptide binding]; other site 574556000981 oligomer interface [polypeptide binding]; other site 574556000982 active site residues [active] 574556000983 ribosomal protein S1; Region: rpsA; TIGR00717 574556000984 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 574556000985 RNA binding site [nucleotide binding]; other site 574556000986 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 574556000987 RNA binding site [nucleotide binding]; other site 574556000988 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 574556000989 RNA binding site [nucleotide binding]; other site 574556000990 S1 RNA binding domain; Region: S1; pfam00575 574556000991 RNA binding site [nucleotide binding]; other site 574556000992 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 574556000993 RNA binding site [nucleotide binding]; other site 574556000994 cytidylate kinase; Provisional; Region: cmk; PRK00023 574556000995 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 574556000996 CMP-binding site; other site 574556000997 The sites determining sugar specificity; other site 574556000998 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 574556000999 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 574556001000 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 574556001001 elongation factor Tu; Reviewed; Region: PRK00049 574556001002 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 574556001003 G1 box; other site 574556001004 GEF interaction site [polypeptide binding]; other site 574556001005 GTP/Mg2+ binding site [chemical binding]; other site 574556001006 Switch I region; other site 574556001007 G2 box; other site 574556001008 G3 box; other site 574556001009 Switch II region; other site 574556001010 G4 box; other site 574556001011 G5 box; other site 574556001012 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 574556001013 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 574556001014 Antibiotic Binding Site [chemical binding]; other site 574556001015 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 574556001016 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 574556001017 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 574556001018 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 574556001019 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 574556001020 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 574556001021 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 574556001022 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 574556001023 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 574556001024 putative translocon binding site; other site 574556001025 protein-rRNA interface [nucleotide binding]; other site 574556001026 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 574556001027 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 574556001028 G-X-X-G motif; other site 574556001029 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 574556001030 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 574556001031 23S rRNA interface [nucleotide binding]; other site 574556001032 5S rRNA interface [nucleotide binding]; other site 574556001033 putative antibiotic binding site [chemical binding]; other site 574556001034 L25 interface [polypeptide binding]; other site 574556001035 L27 interface [polypeptide binding]; other site 574556001036 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 574556001037 putative translocon interaction site; other site 574556001038 signal recognition particle (SRP54) interaction site; other site 574556001039 L23 interface [polypeptide binding]; other site 574556001040 trigger factor interaction site; other site 574556001041 23S rRNA interface [nucleotide binding]; other site 574556001042 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 574556001043 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 574556001044 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 574556001045 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 574556001046 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 574556001047 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 574556001048 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 574556001049 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 574556001050 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 574556001051 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 574556001052 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 574556001053 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 574556001054 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 574556001055 5S rRNA interface [nucleotide binding]; other site 574556001056 23S rRNA interface [nucleotide binding]; other site 574556001057 L5 interface [polypeptide binding]; other site 574556001058 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 574556001059 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 574556001060 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 574556001061 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 574556001062 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 574556001063 SecY translocase; Region: SecY; pfam00344 574556001064 adenylate kinase; Reviewed; Region: adk; PRK00279 574556001065 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 574556001066 AMP-binding site [chemical binding]; other site 574556001067 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 574556001068 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 574556001069 30S ribosomal protein S13; Region: bact_S13; TIGR03631 574556001070 30S ribosomal protein S11; Validated; Region: PRK05309 574556001071 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 574556001072 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 574556001073 alphaNTD - beta interaction site [polypeptide binding]; other site 574556001074 alphaNTD homodimer interface [polypeptide binding]; other site 574556001075 alphaNTD - beta' interaction site [polypeptide binding]; other site 574556001076 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 574556001077 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 574556001078 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 574556001079 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 574556001080 putative tRNA-binding site [nucleotide binding]; other site 574556001081 B3/4 domain; Region: B3_4; pfam03483 574556001082 tRNA synthetase B5 domain; Region: B5; smart00874 574556001083 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 574556001084 dimer interface [polypeptide binding]; other site 574556001085 motif 1; other site 574556001086 motif 3; other site 574556001087 motif 2; other site 574556001088 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 574556001089 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 574556001090 Competence protein; Region: Competence; pfam03772 574556001091 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 574556001092 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 574556001093 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 574556001094 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 574556001095 UbiA prenyltransferase family; Region: UbiA; pfam01040 574556001096 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 574556001097 dihydrodipicolinate reductase; Provisional; Region: PRK00048 574556001098 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 574556001099 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 574556001100 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14244 574556001101 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 574556001102 Walker A/P-loop; other site 574556001103 ATP binding site [chemical binding]; other site 574556001104 Q-loop/lid; other site 574556001105 ABC transporter signature motif; other site 574556001106 Walker B; other site 574556001107 D-loop; other site 574556001108 H-loop/switch region; other site 574556001109 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 574556001110 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 574556001111 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 574556001112 putative phosphate acyltransferase; Provisional; Region: PRK05331 574556001113 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 574556001114 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 574556001115 dimer interface [polypeptide binding]; other site 574556001116 active site 574556001117 CoA binding pocket [chemical binding]; other site 574556001118 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 574556001119 nucleoside/Zn binding site; other site 574556001120 dimer interface [polypeptide binding]; other site 574556001121 catalytic motif [active] 574556001122 replicative DNA helicase; Provisional; Region: PRK09165 574556001123 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 574556001124 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 574556001125 Walker A motif; other site 574556001126 ATP binding site [chemical binding]; other site 574556001127 Walker B motif; other site 574556001128 DNA binding loops [nucleotide binding] 574556001129 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 574556001130 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 574556001131 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 574556001132 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 574556001133 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 574556001134 substrate binding pocket [chemical binding]; other site 574556001135 chain length determination region; other site 574556001136 substrate-Mg2+ binding site; other site 574556001137 catalytic residues [active] 574556001138 aspartate-rich region 1; other site 574556001139 active site lid residues [active] 574556001140 aspartate-rich region 2; other site 574556001141 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 574556001142 Class I ribonucleotide reductase; Region: RNR_I; cd01679 574556001143 active site 574556001144 dimer interface [polypeptide binding]; other site 574556001145 catalytic residues [active] 574556001146 effector binding site; other site 574556001147 R2 peptide binding site; other site 574556001148 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 574556001149 GTP1/OBG; Region: GTP1_OBG; pfam01018 574556001150 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 574556001151 G1 box; other site 574556001152 GTP/Mg2+ binding site [chemical binding]; other site 574556001153 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 574556001154 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 574556001155 GDP-binding site [chemical binding]; other site 574556001156 ACT binding site; other site 574556001157 IMP binding site; other site 574556001158 putative outer membrane lipoprotein; Provisional; Region: PRK09967 574556001159 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 574556001160 ligand binding site [chemical binding]; other site 574556001161 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 574556001162 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 574556001163 Zn binding site [ion binding]; other site 574556001164 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 574556001165 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 574556001166 TPP-binding site [chemical binding]; other site 574556001167 dimer interface [polypeptide binding]; other site 574556001168 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 574556001169 PYR/PP interface [polypeptide binding]; other site 574556001170 dimer interface [polypeptide binding]; other site 574556001171 TPP binding site [chemical binding]; other site 574556001172 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 574556001173 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12603 574556001174 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12670 574556001175 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12504 574556001176 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 574556001177 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 574556001178 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12508 574556001179 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 574556001180 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 574556001181 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 574556001182 RNA binding site [nucleotide binding]; other site 574556001183 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 574556001184 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 574556001185 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 574556001186 nucleotide binding site [chemical binding]; other site 574556001187 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 574556001188 putative coenzyme Q binding site [chemical binding]; other site 574556001189 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12664 574556001190 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 574556001191 signal recognition particle protein; Provisional; Region: PRK10867 574556001192 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 574556001193 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 574556001194 P loop; other site 574556001195 GTP binding site [chemical binding]; other site 574556001196 Signal peptide binding domain; Region: SRP_SPB; pfam02978 574556001197 GTPase Era; Reviewed; Region: era; PRK00089 574556001198 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 574556001199 G1 box; other site 574556001200 GTP/Mg2+ binding site [chemical binding]; other site 574556001201 Switch I region; other site 574556001202 G2 box; other site 574556001203 Switch II region; other site 574556001204 G3 box; other site 574556001205 G4 box; other site 574556001206 G5 box; other site 574556001207 KH domain; Region: KH_2; pfam07650 574556001208 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 574556001209 active site 574556001210 catalytic site [active] 574556001211 substrate binding site [chemical binding]; other site 574556001212 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 574556001213 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 574556001214 catalytic motif [active] 574556001215 Catalytic residue [active] 574556001216 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 574556001217 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 574556001218 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 574556001219 active site 574556001220 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 574556001221 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 574556001222 active site 574556001223 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 574556001224 conserved cys residue [active] 574556001225 primosome assembly protein PriA; Validated; Region: PRK05580 574556001226 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 574556001227 ATP binding site [chemical binding]; other site 574556001228 putative Mg++ binding site [ion binding]; other site 574556001229 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 574556001230 nucleotide binding region [chemical binding]; other site 574556001231 ATP-binding site [chemical binding]; other site 574556001232 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 574556001233 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 574556001234 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 574556001235 RNA binding surface [nucleotide binding]; other site 574556001236 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 574556001237 active site 574556001238 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 574556001239 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 574556001240 ATP-grasp domain; Region: ATP-grasp_4; cl17255 574556001241 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 574556001242 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 574556001243 carboxyltransferase (CT) interaction site; other site 574556001244 biotinylation site [posttranslational modification]; other site 574556001245 lipoyl synthase; Provisional; Region: PRK05481 574556001246 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 574556001247 FeS/SAM binding site; other site 574556001248 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 574556001249 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 574556001250 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 574556001251 dimer interface [polypeptide binding]; other site 574556001252 conserved gate region; other site 574556001253 putative PBP binding loops; other site 574556001254 ABC-ATPase subunit interface; other site 574556001255 Superoxide dismutase [Fe]; Provisional; Region: PTZ00078 574556001256 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 574556001257 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 574556001258 type IV secretion system protein VirB3; Provisional; Region: PRK13899 574556001259 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 574556001260 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 574556001261 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574556001262 Walker A/P-loop; other site 574556001263 ATP binding site [chemical binding]; other site 574556001264 Q-loop/lid; other site 574556001265 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 574556001266 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 574556001267 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 574556001268 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 574556001269 Acyltransferase family; Region: Acyl_transf_3; pfam01757 574556001270 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 574556001271 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 574556001272 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 574556001273 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 574556001274 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 574556001275 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 574556001276 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 574556001277 trimer interface [polypeptide binding]; other site 574556001278 active site 574556001279 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 574556001280 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 574556001281 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 574556001282 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 574556001283 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 574556001284 catalytic site [active] 574556001285 subunit interface [polypeptide binding]; other site 574556001286 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 574556001287 phosphoglyceromutase; Provisional; Region: PRK05434 574556001288 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 574556001289 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 574556001290 G1 box; other site 574556001291 GTP/Mg2+ binding site [chemical binding]; other site 574556001292 Switch I region; other site 574556001293 G2 box; other site 574556001294 Switch II region; other site 574556001295 G3 box; other site 574556001296 G4 box; other site 574556001297 G5 box; other site 574556001298 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 574556001299 G1 box; other site 574556001300 GTP/Mg2+ binding site [chemical binding]; other site 574556001301 Switch I region; other site 574556001302 G2 box; other site 574556001303 G3 box; other site 574556001304 Switch II region; other site 574556001305 G4 box; other site 574556001306 G5 box; other site 574556001307 PQQ-like domain; Region: PQQ_2; pfam13360 574556001308 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 574556001309 Trp docking motif [polypeptide binding]; other site 574556001310 active site 574556001311 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 574556001312 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 574556001313 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 574556001314 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 574556001315 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 574556001316 HlyD family secretion protein; Region: HlyD_3; pfam13437 574556001317 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 574556001318 rRNA binding site [nucleotide binding]; other site 574556001319 predicted 30S ribosome binding site; other site 574556001320 Maf-like protein; Region: Maf; pfam02545 574556001321 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 574556001322 active site 574556001323 dimer interface [polypeptide binding]; other site 574556001324 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 574556001325 rRNA interaction site [nucleotide binding]; other site 574556001326 S8 interaction site; other site 574556001327 putative laminin-1 binding site; other site 574556001328 elongation factor Ts; Provisional; Region: tsf; PRK09377 574556001329 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 574556001330 Elongation factor TS; Region: EF_TS; pfam00889 574556001331 Elongation factor TS; Region: EF_TS; pfam00889 574556001332 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 574556001333 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 574556001334 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 574556001335 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 574556001336 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 574556001337 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 574556001338 [2Fe-2S] cluster binding site [ion binding]; other site 574556001339 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 574556001340 Qi binding site; other site 574556001341 intrachain domain interface; other site 574556001342 interchain domain interface [polypeptide binding]; other site 574556001343 cytochrome b; Provisional; Region: CYTB; MTH00156 574556001344 heme bH binding site [chemical binding]; other site 574556001345 heme bL binding site [chemical binding]; other site 574556001346 Qo binding site; other site 574556001347 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 574556001348 interchain domain interface [polypeptide binding]; other site 574556001349 intrachain domain interface; other site 574556001350 Qi binding site; other site 574556001351 Qo binding site; other site 574556001352 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 574556001353 Cytochrome c; Region: Cytochrom_C; cl11414 574556001354 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 574556001355 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 574556001356 active site 574556001357 HIGH motif; other site 574556001358 nucleotide binding site [chemical binding]; other site 574556001359 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 574556001360 active site 574556001361 KMSKS motif; other site 574556001362 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 574556001363 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 574556001364 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 574556001365 peptide chain release factor 1; Validated; Region: prfA; PRK00591 574556001366 This domain is found in peptide chain release factors; Region: PCRF; smart00937 574556001367 RF-1 domain; Region: RF-1; pfam00472 574556001368 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 574556001369 G1 box; other site 574556001370 GTP/Mg2+ binding site [chemical binding]; other site 574556001371 Switch I region; other site 574556001372 G2 box; other site 574556001373 G3 box; other site 574556001374 Switch II region; other site 574556001375 G4 box; other site 574556001376 G5 box; other site 574556001377 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 574556001378 feedback inhibition sensing region; other site 574556001379 homohexameric interface [polypeptide binding]; other site 574556001380 nucleotide binding site [chemical binding]; other site 574556001381 N-acetyl-L-glutamate binding site [chemical binding]; other site 574556001382 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 574556001383 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 574556001384 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 574556001385 seryl-tRNA synthetase; Provisional; Region: PRK05431 574556001386 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 574556001387 dimer interface [polypeptide binding]; other site 574556001388 active site 574556001389 motif 1; other site 574556001390 motif 2; other site 574556001391 motif 3; other site 574556001392 RmuC family; Region: RmuC; pfam02646 574556001393 VirB8 protein; Region: VirB8; cl01500 574556001394 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 574556001395 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 574556001396 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 574556001397 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 574556001398 SLBB domain; Region: SLBB; pfam10531 574556001399 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 574556001400 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 574556001401 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 574556001402 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 574556001403 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 574556001404 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 574556001405 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 574556001406 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 574556001407 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 574556001408 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 574556001409 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 574556001410 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 574556001411 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 574556001412 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 574556001413 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 574556001414 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 574556001415 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 574556001416 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 574556001417 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 574556001418 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 574556001419 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 574556001420 NusA N-terminal domain; Region: NusA_N; pfam08529 574556001421 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 574556001422 RNA binding site [nucleotide binding]; other site 574556001423 homodimer interface [polypeptide binding]; other site 574556001424 NusA-like KH domain; Region: KH_5; pfam13184 574556001425 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 574556001426 G-X-X-G motif; other site 574556001427 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 574556001428 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 574556001429 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 574556001430 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 574556001431 G1 box; other site 574556001432 putative GEF interaction site [polypeptide binding]; other site 574556001433 GTP/Mg2+ binding site [chemical binding]; other site 574556001434 Switch I region; other site 574556001435 G2 box; other site 574556001436 G3 box; other site 574556001437 Switch II region; other site 574556001438 G4 box; other site 574556001439 G5 box; other site 574556001440 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 574556001441 Translation-initiation factor 2; Region: IF-2; pfam11987 574556001442 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 574556001443 Ribosome-binding factor A; Region: RBFA; pfam02033 574556001444 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 574556001445 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 574556001446 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 574556001447 Walker A motif; other site 574556001448 ATP binding site [chemical binding]; other site 574556001449 Walker B motif; other site 574556001450 arginine finger; other site 574556001451 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 574556001452 Walker A motif; other site 574556001453 ATP binding site [chemical binding]; other site 574556001454 Walker B motif; other site 574556001455 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 574556001456 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 574556001457 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 574556001458 G1 box; other site 574556001459 putative GEF interaction site [polypeptide binding]; other site 574556001460 GTP/Mg2+ binding site [chemical binding]; other site 574556001461 Switch I region; other site 574556001462 G2 box; other site 574556001463 G3 box; other site 574556001464 Switch II region; other site 574556001465 G4 box; other site 574556001466 G5 box; other site 574556001467 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 574556001468 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 574556001469 TrbC/VIRB2 family; Region: TrbC; pfam04956 574556001470 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 574556001471 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 574556001472 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 574556001473 Catalytic site [active] 574556001474 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 574556001475 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 574556001476 4Fe-4S binding domain; Region: Fer4; cl02805 574556001477 4Fe-4S binding domain; Region: Fer4; pfam00037 574556001478 Surface antigen; Region: Surface_Ag_2; pfam01617 574556001479 Surface antigen; Region: Surface_Ag_2; pfam01617 574556001480 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 574556001481 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574556001482 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 574556001483 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 574556001484 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 574556001485 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574556001486 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 574556001487 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574556001488 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 574556001489 FAD binding domain; Region: FAD_binding_4; pfam01565 574556001490 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 574556001491 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 574556001492 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 574556001493 domain interfaces; other site 574556001494 active site 574556001495 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 574556001496 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 574556001497 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 574556001498 hypothetical protein; Validated; Region: PRK00110 574556001499 peptide chain release factor 2; Validated; Region: prfB; PRK00578 574556001500 This domain is found in peptide chain release factors; Region: PCRF; smart00937 574556001501 RF-1 domain; Region: RF-1; pfam00472 574556001502 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 574556001503 RNA methyltransferase, RsmE family; Region: TIGR00046 574556001504 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 574556001505 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 574556001506 catalytic triad [active] 574556001507 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 574556001508 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 574556001509 HIGH motif; other site 574556001510 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 574556001511 active site 574556001512 KMSKS motif; other site 574556001513 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 574556001514 tRNA binding surface [nucleotide binding]; other site 574556001515 anticodon binding site; other site 574556001516 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 574556001517 Recombination protein O C terminal; Region: RecO_C; pfam02565 574556001518 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 574556001519 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 574556001520 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 574556001521 active site 574556001522 HIGH motif; other site 574556001523 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 574556001524 KMSK motif region; other site 574556001525 tRNA binding surface [nucleotide binding]; other site 574556001526 DALR anticodon binding domain; Region: DALR_1; smart00836 574556001527 anticodon binding site; other site 574556001528 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 574556001529 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 574556001530 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 574556001531 alpha subunit interaction interface [polypeptide binding]; other site 574556001532 Walker A motif; other site 574556001533 ATP binding site [chemical binding]; other site 574556001534 Walker B motif; other site 574556001535 inhibitor binding site; inhibition site 574556001536 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 574556001537 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; pfam02823 574556001538 gamma subunit interface [polypeptide binding]; other site 574556001539 epsilon subunit interface [polypeptide binding]; other site 574556001540 LBP interface [polypeptide binding]; other site 574556001541 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 574556001542 active site 574556001543 intersubunit interactions; other site 574556001544 catalytic residue [active] 574556001545 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 574556001546 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 574556001547 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 574556001548 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 574556001549 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 574556001550 dimerization interface 3.5A [polypeptide binding]; other site 574556001551 active site 574556001552 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 574556001553 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 574556001554 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 574556001555 active site 574556001556 nucleotide binding site [chemical binding]; other site 574556001557 HIGH motif; other site 574556001558 KMSKS motif; other site 574556001559 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 574556001560 Transcriptional regulator; Region: Rrf2; cl17282 574556001561 Rrf2 family protein; Region: rrf2_super; TIGR00738 574556001562 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 574556001563 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 574556001564 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 574556001565 catalytic residue [active] 574556001566 cysteine desulfurase; Provisional; Region: PRK14012 574556001567 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 574556001568 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 574556001569 catalytic residue [active] 574556001570 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 574556001571 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 574556001572 trimerization site [polypeptide binding]; other site 574556001573 active site 574556001574 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 574556001575 co-chaperone HscB; Provisional; Region: hscB; PRK05014 574556001576 DnaJ domain; Region: DnaJ; pfam00226 574556001577 HSP70 interaction site [polypeptide binding]; other site 574556001578 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 574556001579 Fe-S protein assembly chaperone HscA; Region: HscA; TIGR01991 574556001580 nucleotide binding site [chemical binding]; other site 574556001581 putative NEF/HSP70 interaction site [polypeptide binding]; other site 574556001582 SBD interface [polypeptide binding]; other site 574556001583 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 574556001584 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 574556001585 catalytic loop [active] 574556001586 iron binding site [ion binding]; other site 574556001587 Cytochrome C biogenesis protein; Region: CcmH; cl01179 574556001588 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 574556001589 Flavoprotein; Region: Flavoprotein; pfam02441 574556001590 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 574556001591 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 574556001592 Mg2+ binding site [ion binding]; other site 574556001593 G-X-G motif; other site 574556001594 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 574556001595 anchoring element; other site 574556001596 dimer interface [polypeptide binding]; other site 574556001597 ATP binding site [chemical binding]; other site 574556001598 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 574556001599 active site 574556001600 putative metal-binding site [ion binding]; other site 574556001601 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 574556001602 NADH dehydrogenase subunit G; Validated; Region: PRK09130 574556001603 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 574556001604 catalytic loop [active] 574556001605 iron binding site [ion binding]; other site 574556001606 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 574556001607 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 574556001608 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 574556001609 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 574556001610 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 574556001611 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 574556001612 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 574556001613 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 574556001614 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 574556001615 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 574556001616 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 574556001617 30S subunit binding site; other site 574556001618 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 574556001619 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574556001620 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 574556001621 DNA binding residues [nucleotide binding] 574556001622 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 574556001623 potential protein location (hypothetical protein ACIS_00675 [Anaplasma centrale str. Israel]) that overlaps RNA (tRNA-T) 574556001624 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 574556001625 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 574556001626 DNA binding site [nucleotide binding] 574556001627 catalytic residue [active] 574556001628 H2TH interface [polypeptide binding]; other site 574556001629 putative catalytic residues [active] 574556001630 turnover-facilitating residue; other site 574556001631 intercalation triad [nucleotide binding]; other site 574556001632 8OG recognition residue [nucleotide binding]; other site 574556001633 putative reading head residues; other site 574556001634 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 574556001635 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 574556001636 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 574556001637 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 574556001638 S-adenosylmethionine binding site [chemical binding]; other site 574556001639 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 574556001640 MgtE intracellular N domain; Region: MgtE_N; smart00924 574556001641 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 574556001642 Divalent cation transporter; Region: MgtE; cl00786 574556001643 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 574556001644 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 574556001645 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 574556001646 Walker A motif; other site 574556001647 ATP binding site [chemical binding]; other site 574556001648 Walker B motif; other site 574556001649 arginine finger; other site 574556001650 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 574556001651 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 574556001652 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 574556001653 active site 574556001654 catalytic site [active] 574556001655 substrate binding site [chemical binding]; other site 574556001656 NADH dehydrogenase subunit E; Validated; Region: PRK07539 574556001657 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 574556001658 putative dimer interface [polypeptide binding]; other site 574556001659 [2Fe-2S] cluster binding site [ion binding]; other site 574556001660 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 574556001661 NADH dehydrogenase subunit D; Validated; Region: PRK06075 574556001662 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 574556001663 core domain interface [polypeptide binding]; other site 574556001664 delta subunit interface [polypeptide binding]; other site 574556001665 epsilon subunit interface [polypeptide binding]; other site 574556001666 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 574556001667 GTP cyclohydrolase I; Provisional; Region: PLN03044 574556001668 active site 574556001669 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 574556001670 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 574556001671 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 574556001672 large tegument protein UL36; Provisional; Region: PHA03247 574556001673 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 574556001674 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 574556001675 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 574556001676 MraW methylase family; Region: Methyltransf_5; cl17771 574556001677 Cell division protein FtsL; Region: FtsL; cl11433 574556001678 GTPase CgtA; Reviewed; Region: obgE; PRK12299 574556001679 GTP1/OBG; Region: GTP1_OBG; pfam01018 574556001680 Obg GTPase; Region: Obg; cd01898 574556001681 G1 box; other site 574556001682 GTP/Mg2+ binding site [chemical binding]; other site 574556001683 Switch I region; other site 574556001684 G2 box; other site 574556001685 G3 box; other site 574556001686 Switch II region; other site 574556001687 G4 box; other site 574556001688 enolase; Provisional; Region: eno; PRK00077 574556001689 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 574556001690 dimer interface [polypeptide binding]; other site 574556001691 metal binding site [ion binding]; metal-binding site 574556001692 substrate binding pocket [chemical binding]; other site 574556001693 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 574556001694 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 574556001695 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 574556001696 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 574556001697 active site 574556001698 Int/Topo IB signature motif; other site 574556001699 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 574556001700 putative catalytic site [active] 574556001701 putative phosphate binding site [ion binding]; other site 574556001702 active site 574556001703 metal binding site A [ion binding]; metal-binding site 574556001704 DNA binding site [nucleotide binding] 574556001705 putative AP binding site [nucleotide binding]; other site 574556001706 putative metal binding site B [ion binding]; other site 574556001707 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 574556001708 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 574556001709 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 574556001710 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 574556001711 homotetramer interface [polypeptide binding]; other site 574556001712 NAD(P) binding site [chemical binding]; other site 574556001713 homodimer interface [polypeptide binding]; other site 574556001714 active site 574556001715 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 574556001716 Proline dehydrogenase; Region: Pro_dh; cl03282 574556001717 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 574556001718 Glutamate binding site [chemical binding]; other site 574556001719 NAD binding site [chemical binding]; other site 574556001720 catalytic residues [active] 574556001721 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 574556001722 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 574556001723 Phage major tail protein 2; Region: Phage_tail_2; cl11463 574556001724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 574556001725 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 574556001726 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 574556001727 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 574556001728 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 574556001729 S-adenosylmethionine binding site [chemical binding]; other site 574556001730 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 574556001731 malate dehydrogenase; Reviewed; Region: PRK06223 574556001732 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 574556001733 dimer interface [polypeptide binding]; other site 574556001734 NAD(P) binding site [chemical binding]; other site 574556001735 tetramer (dimer of dimers) interface [polypeptide binding]; other site 574556001736 substrate binding site [chemical binding]; other site 574556001737 Dihydroneopterin aldolase; Region: FolB; pfam02152 574556001738 active site 574556001739 RDD family; Region: RDD; pfam06271 574556001740 UGMP family protein; Validated; Region: PRK09604 574556001741 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 574556001742 nucleotide binding site [chemical binding]; other site 574556001743 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 574556001744 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 574556001745 membrane-bound complex binding site; other site 574556001746 hinge residues; other site 574556001747 triosephosphate isomerase; Provisional; Region: PRK14565 574556001748 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 574556001749 substrate binding site [chemical binding]; other site 574556001750 dimer interface [polypeptide binding]; other site 574556001751 catalytic triad [active] 574556001752 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 574556001753 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 574556001754 Protein of unknown function (DUF721); Region: DUF721; pfam05258 574556001755 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 574556001756 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 574556001757 inhibitor-cofactor binding pocket; inhibition site 574556001758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574556001759 catalytic residue [active] 574556001760 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 574556001761 thiamine monophosphate kinase; Provisional; Region: PRK05731 574556001762 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 574556001763 ATP binding site [chemical binding]; other site 574556001764 dimerization interface [polypeptide binding]; other site 574556001765 GTP-binding protein LepA; Provisional; Region: PRK05433 574556001766 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 574556001767 G1 box; other site 574556001768 putative GEF interaction site [polypeptide binding]; other site 574556001769 GTP/Mg2+ binding site [chemical binding]; other site 574556001770 Switch I region; other site 574556001771 G2 box; other site 574556001772 G3 box; other site 574556001773 Switch II region; other site 574556001774 G4 box; other site 574556001775 G5 box; other site 574556001776 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 574556001777 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 574556001778 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 574556001779 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 574556001780 Methyltransferase domain; Region: Methyltransf_11; pfam08241 574556001781 S-adenosylmethionine binding site [chemical binding]; other site 574556001782 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 574556001783 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 574556001784 RNase E interface [polypeptide binding]; other site 574556001785 trimer interface [polypeptide binding]; other site 574556001786 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 574556001787 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 574556001788 RNase E interface [polypeptide binding]; other site 574556001789 trimer interface [polypeptide binding]; other site 574556001790 active site 574556001791 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 574556001792 putative nucleic acid binding region [nucleotide binding]; other site 574556001793 G-X-X-G motif; other site 574556001794 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 574556001795 RNA binding site [nucleotide binding]; other site 574556001796 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 574556001797 16S/18S rRNA binding site [nucleotide binding]; other site 574556001798 S13e-L30e interaction site [polypeptide binding]; other site 574556001799 25S rRNA binding site [nucleotide binding]; other site 574556001800 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 574556001801 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 574556001802 RNA binding site [nucleotide binding]; other site 574556001803 active site 574556001804 rod shape-determining protein MreB; Provisional; Region: PRK13927 574556001805 MreB and similar proteins; Region: MreB_like; cd10225 574556001806 nucleotide binding site [chemical binding]; other site 574556001807 Mg binding site [ion binding]; other site 574556001808 putative protofilament interaction site [polypeptide binding]; other site 574556001809 RodZ interaction site [polypeptide binding]; other site 574556001810 rod shape-determining protein MreC; Provisional; Region: PRK13922 574556001811 rod shape-determining protein MreC; Region: MreC; pfam04085 574556001812 potential protein location (hypothetical protein ACIS_00784 [Anaplasma centrale str. Israel]) that overlaps RNA (tRNA-R) 574556001813 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 574556001814 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 574556001815 Glycoprotease family; Region: Peptidase_M22; pfam00814 574556001816 SurA N-terminal domain; Region: SurA_N_3; cl07813 574556001817 periplasmic folding chaperone; Provisional; Region: PRK10788 574556001818 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 574556001819 aspartate aminotransferase; Provisional; Region: PRK05764 574556001820 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 574556001821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574556001822 homodimer interface [polypeptide binding]; other site 574556001823 catalytic residue [active] 574556001824 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 574556001825 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 574556001826 dimer interface [polypeptide binding]; other site 574556001827 decamer (pentamer of dimers) interface [polypeptide binding]; other site 574556001828 catalytic triad [active] 574556001829 peroxidatic and resolving cysteines [active] 574556001830 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 574556001831 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 574556001832 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 574556001833 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 574556001834 active site 574556001835 (T/H)XGH motif; other site 574556001836 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 574556001837 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 574556001838 prolyl-tRNA synthetase; Provisional; Region: PRK12325 574556001839 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 574556001840 dimer interface [polypeptide binding]; other site 574556001841 motif 1; other site 574556001842 active site 574556001843 motif 2; other site 574556001844 motif 3; other site 574556001845 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 574556001846 anticodon binding site; other site 574556001847 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14659 574556001848 Stringent starvation protein B; Region: SspB; pfam04386 574556001849 DNA topoisomerase I; Validated; Region: PRK06599 574556001850 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 574556001851 active site 574556001852 interdomain interaction site; other site 574556001853 putative metal-binding site [ion binding]; other site 574556001854 nucleotide binding site [chemical binding]; other site 574556001855 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 574556001856 domain I; other site 574556001857 DNA binding groove [nucleotide binding] 574556001858 phosphate binding site [ion binding]; other site 574556001859 domain II; other site 574556001860 domain III; other site 574556001861 nucleotide binding site [chemical binding]; other site 574556001862 catalytic site [active] 574556001863 domain IV; other site 574556001864 Uncharacterized C-terminal domain of topoisomerase IA [General function prediction only]; Region: COG1754 574556001865 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 574556001866 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 574556001867 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 574556001868 Uncharacterized conserved protein [Function unknown]; Region: COG0062 574556001869 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 574556001870 putative substrate binding site [chemical binding]; other site 574556001871 putative ATP binding site [chemical binding]; other site 574556001872 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 574556001873 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 574556001874 S-adenosylmethionine binding site [chemical binding]; other site 574556001875 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 574556001876 dimer interface [polypeptide binding]; other site 574556001877 phosphorylation site [posttranslational modification] 574556001878 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 574556001879 ATP binding site [chemical binding]; other site 574556001880 Mg2+ binding site [ion binding]; other site 574556001881 G-X-G motif; other site 574556001882 Response regulator receiver domain; Region: Response_reg; pfam00072 574556001883 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 574556001884 active site 574556001885 phosphorylation site [posttranslational modification] 574556001886 intermolecular recognition site; other site 574556001887 dimerization interface [polypeptide binding]; other site 574556001888 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 574556001889 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14610 574556001890 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 574556001891 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 574556001892 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 574556001893 FMN binding site [chemical binding]; other site 574556001894 active site 574556001895 catalytic residues [active] 574556001896 substrate binding site [chemical binding]; other site 574556001897 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 574556001898 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 574556001899 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 574556001900 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 574556001901 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 574556001902 DNA binding residues [nucleotide binding] 574556001903 DNA primase; Validated; Region: dnaG; PRK05667 574556001904 CHC2 zinc finger; Region: zf-CHC2; pfam01807 574556001905 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 574556001906 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 574556001907 active site 574556001908 metal binding site [ion binding]; metal-binding site 574556001909 interdomain interaction site; other site 574556001910 Uncharacterized conserved protein [Function unknown]; Region: COG1565 574556001911 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 574556001912 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 574556001913 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 574556001914 catalytic residues [active] 574556001915 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 574556001916 dimer interface [polypeptide binding]; other site 574556001917 putative radical transfer pathway; other site 574556001918 diiron center [ion binding]; other site 574556001919 tyrosyl radical; other site 574556001920 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 574556001921 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 574556001922 active site 574556001923 HIGH motif; other site 574556001924 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 574556001925 KMSKS motif; other site 574556001926 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 574556001927 tRNA binding surface [nucleotide binding]; other site 574556001928 anticodon binding site; other site 574556001929 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 574556001930 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 574556001931 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 574556001932 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 574556001933 response regulator PleD; Reviewed; Region: pleD; PRK09581 574556001934 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 574556001935 active site 574556001936 phosphorylation site [posttranslational modification] 574556001937 intermolecular recognition site; other site 574556001938 dimerization interface [polypeptide binding]; other site 574556001939 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 574556001940 active site 574556001941 phosphorylation site [posttranslational modification] 574556001942 intermolecular recognition site; other site 574556001943 dimerization interface [polypeptide binding]; other site 574556001944 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 574556001945 metal binding site [ion binding]; metal-binding site 574556001946 active site 574556001947 I-site; other site 574556001948 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 574556001949 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 574556001950 active site 574556001951 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 574556001952 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 574556001953 active site 574556001954 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 574556001955 elongation factor P; Validated; Region: PRK00529 574556001956 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 574556001957 RNA binding site [nucleotide binding]; other site 574556001958 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 574556001959 RNA binding site [nucleotide binding]; other site 574556001960 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 574556001961 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 574556001962 active site 574556001963 homodimer interface [polypeptide binding]; other site 574556001964 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 574556001965 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 574556001966 FAD binding pocket [chemical binding]; other site 574556001967 FAD binding motif [chemical binding]; other site 574556001968 phosphate binding motif [ion binding]; other site 574556001969 beta-alpha-beta structure motif; other site 574556001970 NAD binding pocket [chemical binding]; other site 574556001971 Iron coordination center [ion binding]; other site 574556001972 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 574556001973 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 574556001974 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 574556001975 membrane protein insertase; Provisional; Region: PRK01318 574556001976 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 574556001977 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 574556001978 homopentamer interface [polypeptide binding]; other site 574556001979 active site 574556001980 transcription antitermination factor NusB; Region: nusB; TIGR01951 574556001981 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 574556001982 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 574556001983 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 574556001984 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 574556001985 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 574556001986 NADH dehydrogenase subunit B; Validated; Region: PRK06411 574556001987 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 574556001988 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 574556001989 Survival protein SurE; Region: SurE; pfam01975 574556001990 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 574556001991 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 574556001992 active site 574556001993 dimer interface [polypeptide binding]; other site 574556001994 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 574556001995 active site 574556001996 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 574556001997 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 574556001998 HIGH motif; other site 574556001999 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 574556002000 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 574556002001 active site 574556002002 KMSKS motif; other site 574556002003 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 574556002004 tRNA binding surface [nucleotide binding]; other site 574556002005 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 574556002006 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 574556002007 Helix-turn-helix domain; Region: HTH_37; pfam13744 574556002008 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 574556002009 Smr domain; Region: Smr; pfam01713 574556002010 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 574556002011 ThiC-associated domain; Region: ThiC-associated; pfam13667 574556002012 ThiC family; Region: ThiC; pfam01964 574556002013 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 574556002014 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 574556002015 CoA-binding site [chemical binding]; other site 574556002016 ATP-binding [chemical binding]; other site 574556002017 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 574556002018 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 574556002019 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 574556002020 IHF dimer interface [polypeptide binding]; other site 574556002021 IHF - DNA interface [nucleotide binding]; other site 574556002022 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 574556002023 active site 574556002024 hydrophilic channel; other site 574556002025 dimerization interface [polypeptide binding]; other site 574556002026 catalytic residues [active] 574556002027 active site lid [active] 574556002028 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 574556002029 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 574556002030 active site 574556002031 (T/H)XGH motif; other site 574556002032 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 574556002033 DnaA N-terminal domain; Region: DnaA_N; pfam11638 574556002034 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 574556002035 Walker A motif; other site 574556002036 ATP binding site [chemical binding]; other site 574556002037 Walker B motif; other site 574556002038 arginine finger; other site 574556002039 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 574556002040 DnaA box-binding interface [nucleotide binding]; other site 574556002041 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 574556002042 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 574556002043 NAD binding site [chemical binding]; other site 574556002044 homotetramer interface [polypeptide binding]; other site 574556002045 homodimer interface [polypeptide binding]; other site 574556002046 substrate binding site [chemical binding]; other site 574556002047 active site 574556002048 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 574556002049 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 574556002050 GatB domain; Region: GatB_Yqey; smart00845 574556002051 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 574556002052 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 574556002053 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 574556002054 dimer interface [polypeptide binding]; other site 574556002055 ssDNA binding site [nucleotide binding]; other site 574556002056 tetramer (dimer of dimers) interface [polypeptide binding]; other site 574556002057 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 574556002058 metabolite-proton symporter; Region: 2A0106; TIGR00883 574556002059 putative substrate translocation pore; other site 574556002060 metabolite-proton symporter; Region: 2A0106; TIGR00883 574556002061 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 574556002062 putative substrate translocation pore; other site 574556002063 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 574556002064 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 574556002065 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 574556002066 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 574556002067 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 574556002068 delta-aminolevulinic acid dehydratase; Validated; Region: PRK09283 574556002069 dimer interface [polypeptide binding]; other site 574556002070 active site 574556002071 Schiff base residues; other site 574556002072 NAD synthetase; Provisional; Region: PRK13981 574556002073 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 574556002074 catalytic triad [active] 574556002075 dimer interface [polypeptide binding]; other site 574556002076 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 574556002077 homodimer interface [polypeptide binding]; other site 574556002078 NAD binding pocket [chemical binding]; other site 574556002079 ATP binding pocket [chemical binding]; other site 574556002080 Mg binding site [ion binding]; other site 574556002081 active-site loop [active] 574556002082 metabolite-proton symporter; Region: 2A0106; TIGR00883 574556002083 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 574556002084 putative substrate translocation pore; other site 574556002085 metabolite-proton symporter; Region: 2A0106; TIGR00883 574556002086 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 574556002087 putative substrate translocation pore; other site 574556002088 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 574556002089 MutS domain I; Region: MutS_I; pfam01624 574556002090 MutS domain II; Region: MutS_II; pfam05188 574556002091 MutS domain III; Region: MutS_III; pfam05192 574556002092 MutS domain V; Region: MutS_V; pfam00488 574556002093 Walker A/P-loop; other site 574556002094 ATP binding site [chemical binding]; other site 574556002095 Q-loop/lid; other site 574556002096 ABC transporter signature motif; other site 574556002097 Walker B; other site 574556002098 D-loop; other site 574556002099 H-loop/switch region; other site 574556002100 O-phosphoserine--tRNA ligase; Region: sepS; TIGR00470 574556002101 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 574556002102 nucleotide binding site/active site [active] 574556002103 HIT family signature motif; other site 574556002104 catalytic residue [active] 574556002105 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 574556002106 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 574556002107 dimer interface [polypeptide binding]; other site 574556002108 active site 574556002109 catalytic residue [active] 574556002110 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 574556002111 Phage capsid family; Region: Phage_capsid; pfam05065 574556002112 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 574556002113 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 574556002114 TPP-binding site [chemical binding]; other site 574556002115 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 574556002116 dimer interface [polypeptide binding]; other site 574556002117 PYR/PP interface [polypeptide binding]; other site 574556002118 TPP binding site [chemical binding]; other site 574556002119 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 574556002120 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 574556002121 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 574556002122 Putative phage tail protein; Region: Phage-tail_3; pfam13550 574556002123 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 574556002124 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 574556002125 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 574556002126 FeS/SAM binding site; other site 574556002127 ABC1 family; Region: ABC1; cl17513 574556002128 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 574556002129 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 574556002130 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574556002131 Walker A/P-loop; other site 574556002132 ATP binding site [chemical binding]; other site 574556002133 Q-loop/lid; other site 574556002134 ABC transporter signature motif; other site 574556002135 Walker B; other site 574556002136 D-loop; other site 574556002137 H-loop/switch region; other site 574556002138 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 574556002139 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 574556002140 metal binding site [ion binding]; metal-binding site 574556002141 recombination protein RecR; Reviewed; Region: recR; PRK00076 574556002142 RecR protein; Region: RecR; pfam02132 574556002143 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 574556002144 putative active site [active] 574556002145 putative metal-binding site [ion binding]; other site 574556002146 tetramer interface [polypeptide binding]; other site 574556002147 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 574556002148 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 574556002149 Walker A/P-loop; other site 574556002150 ATP binding site [chemical binding]; other site 574556002151 Q-loop/lid; other site 574556002152 ABC transporter signature motif; other site 574556002153 Walker B; other site 574556002154 D-loop; other site 574556002155 H-loop/switch region; other site 574556002156 TOBE domain; Region: TOBE_2; pfam08402 574556002157 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 574556002158 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 574556002159 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 574556002160 C-terminal domain interface [polypeptide binding]; other site 574556002161 GSH binding site (G-site) [chemical binding]; other site 574556002162 dimer interface [polypeptide binding]; other site 574556002163 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 574556002164 N-terminal domain interface [polypeptide binding]; other site 574556002165 dimer interface [polypeptide binding]; other site 574556002166 substrate binding pocket (H-site) [chemical binding]; other site 574556002167 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 574556002168 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 574556002169 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 574556002170 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 574556002171 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 574556002172 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 574556002173 GIY-YIG motif/motif A; other site 574556002174 active site 574556002175 catalytic site [active] 574556002176 putative DNA binding site [nucleotide binding]; other site 574556002177 metal binding site [ion binding]; metal-binding site 574556002178 UvrB/uvrC motif; Region: UVR; pfam02151 574556002179 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 574556002180 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 574556002181 adenylosuccinate lyase; Provisional; Region: PRK07492 574556002182 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 574556002183 tetramer interface [polypeptide binding]; other site 574556002184 active site 574556002185 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 574556002186 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 574556002187 GIY-YIG motif/motif A; other site 574556002188 active site 574556002189 catalytic site [active] 574556002190 heat shock protein 90; Provisional; Region: PRK05218 574556002191 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 574556002192 ATP binding site [chemical binding]; other site 574556002193 Mg2+ binding site [ion binding]; other site 574556002194 G-X-G motif; other site 574556002195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 574556002196 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 574556002197 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 574556002198 minor groove reading motif; other site 574556002199 helix-hairpin-helix signature motif; other site 574556002200 substrate binding pocket [chemical binding]; other site 574556002201 active site 574556002202 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 574556002203 DNA gyrase subunit A; Validated; Region: PRK05560 574556002204 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 574556002205 CAP-like domain; other site 574556002206 active site 574556002207 primary dimer interface [polypeptide binding]; other site 574556002208 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 574556002209 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 574556002210 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 574556002211 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 574556002212 chromosome segregation protein; Provisional; Region: PRK03918 574556002213 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 574556002214 Part of AAA domain; Region: AAA_19; pfam13245 574556002215 Family description; Region: UvrD_C_2; pfam13538 574556002216 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 574556002217 diiron binding motif [ion binding]; other site 574556002218 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 574556002219 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 574556002220 acyl carrier protein; Provisional; Region: acpP; PRK00982 574556002221 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 574556002222 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 574556002223 dimer interface [polypeptide binding]; other site 574556002224 active site 574556002225 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 574556002226 Walker A motif; other site 574556002227 ATP binding site [chemical binding]; other site 574556002228 Walker B motif; other site 574556002229 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 574556002230 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 574556002231 Ligand Binding Site [chemical binding]; other site 574556002232 DNA protecting protein DprA; Region: dprA; TIGR00732 574556002233 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 574556002234 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 574556002235 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 574556002236 ATP binding site [chemical binding]; other site 574556002237 Mg2+ binding site [ion binding]; other site 574556002238 G-X-G motif; other site 574556002239 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 574556002240 ATP binding site [chemical binding]; other site 574556002241 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 574556002242 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 574556002243 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 574556002244 TolR protein; Region: tolR; TIGR02801 574556002245 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 574556002246 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 574556002247 dimer interface [polypeptide binding]; other site 574556002248 phosphorylation site [posttranslational modification] 574556002249 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 574556002250 ATP binding site [chemical binding]; other site 574556002251 Mg2+ binding site [ion binding]; other site 574556002252 G-X-G motif; other site 574556002253 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 574556002254 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 574556002255 inhibitor-cofactor binding pocket; inhibition site 574556002256 pyridoxal 5'-phosphate binding site [chemical binding]; other site 574556002257 catalytic residue [active] 574556002258 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 574556002259 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 574556002260 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 574556002261 YGGT family; Region: YGGT; pfam02325 574556002262 Domain of unknown function DUF21; Region: DUF21; pfam01595 574556002263 gliding motility-associated protein GldE; Region: GldE; TIGR03520 574556002264 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 574556002265 Transporter associated domain; Region: CorC_HlyC; smart01091 574556002266 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 574556002267 thiamine phosphate binding site [chemical binding]; other site 574556002268 active site 574556002269 pyrophosphate binding site [ion binding]; other site 574556002270 PEP synthetase regulatory protein; Provisional; Region: PRK05339 574556002271 hypothetical protein; Validated; Region: PRK01415 574556002272 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 574556002273 active site residue [active] 574556002274 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 574556002275 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 574556002276 putative active site [active] 574556002277 substrate binding site [chemical binding]; other site 574556002278 putative cosubstrate binding site; other site 574556002279 catalytic site [active] 574556002280 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 574556002281 substrate binding site [chemical binding]; other site 574556002282 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 574556002283 Found in ATP-dependent protease La (LON); Region: LON; smart00464 574556002284 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 574556002285 Walker A motif; other site 574556002286 ATP binding site [chemical binding]; other site 574556002287 Walker B motif; other site 574556002288 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 574556002289 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 574556002290 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 574556002291 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 574556002292 Walker A motif; other site 574556002293 ATP binding site [chemical binding]; other site 574556002294 Walker B motif; other site 574556002295 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 574556002296 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 574556002297 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 574556002298 oligomer interface [polypeptide binding]; other site 574556002299 active site residues [active] 574556002300 trigger factor; Region: tig; TIGR00115 574556002301 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 574556002302 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 574556002303 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 574556002304 tetramer interfaces [polypeptide binding]; other site 574556002305 binuclear metal-binding site [ion binding]; other site 574556002306 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 574556002307 Coenzyme A binding pocket [chemical binding]; other site 574556002308 PAS fold; Region: PAS_7; pfam12860 574556002309 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 574556002310 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 574556002311 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 574556002312 RNA binding surface [nucleotide binding]; other site 574556002313 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 574556002314 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 574556002315 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 574556002316 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 574556002317 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 574556002318 dimer interface [polypeptide binding]; other site 574556002319 substrate binding site [chemical binding]; other site 574556002320 ATP binding site [chemical binding]; other site 574556002321 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 574556002322 putative SdhC subunit interface [polypeptide binding]; other site 574556002323 putative proximal heme binding site [chemical binding]; other site 574556002324 putative Iron-sulfur protein interface [polypeptide binding]; other site 574556002325 putative proximal quinone binding site; other site 574556002326 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 574556002327 Iron-sulfur protein interface; other site 574556002328 proximal quinone binding site [chemical binding]; other site 574556002329 SdhD (CybS) interface [polypeptide binding]; other site 574556002330 proximal heme binding site [chemical binding]; other site 574556002331 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 574556002332 putative active site [active] 574556002333 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 574556002334 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 574556002335 putative active site [active] 574556002336 putative PHP Thumb interface [polypeptide binding]; other site 574556002337 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 574556002338 generic binding surface I; other site 574556002339 generic binding surface II; other site 574556002340 BolA-like protein; Region: BolA; pfam01722 574556002341 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 574556002342 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 574556002343 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 574556002344 catalytic residue [active] 574556002345 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 574556002346 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 574556002347 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 574556002348 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 574556002349 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 574556002350 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 574556002351 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 574556002352 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 574556002353 active site 574556002354 nucleophile elbow; other site 574556002355 Predicted esterase [General function prediction only]; Region: COG0400 574556002356 putative hydrolase; Provisional; Region: PRK11460 574556002357 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 574556002358 active site 574556002359 catalytic residues [active] 574556002360 metal binding site [ion binding]; metal-binding site 574556002361 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 574556002362 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 574556002363 quinone interaction residues [chemical binding]; other site 574556002364 active site 574556002365 catalytic residues [active] 574556002366 FMN binding site [chemical binding]; other site 574556002367 substrate binding site [chemical binding]; other site 574556002368 pantothenate kinase; Reviewed; Region: PRK13318 574556002369 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 574556002370 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 574556002371 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 574556002372 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 574556002373 catalytic residue [active] 574556002374 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 574556002375 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 574556002376 RNA/DNA hybrid binding site [nucleotide binding]; other site 574556002377 active site 574556002378 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 574556002379 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 574556002380 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 574556002381 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 574556002382 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 574556002383 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 574556002384 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 574556002385 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 574556002386 DNA binding site [nucleotide binding] 574556002387 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 574556002388 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 574556002389 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 574556002390 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 574556002391 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 574556002392 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 574556002393 RPB3 interaction site [polypeptide binding]; other site 574556002394 RPB1 interaction site [polypeptide binding]; other site 574556002395 RPB11 interaction site [polypeptide binding]; other site 574556002396 RPB10 interaction site [polypeptide binding]; other site 574556002397 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 574556002398 peripheral dimer interface [polypeptide binding]; other site 574556002399 core dimer interface [polypeptide binding]; other site 574556002400 L10 interface [polypeptide binding]; other site 574556002401 L11 interface [polypeptide binding]; other site 574556002402 putative EF-Tu interaction site [polypeptide binding]; other site 574556002403 putative EF-G interaction site [polypeptide binding]; other site 574556002404 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 574556002405 23S rRNA interface [nucleotide binding]; other site 574556002406 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 574556002407 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 574556002408 mRNA/rRNA interface [nucleotide binding]; other site 574556002409 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 574556002410 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 574556002411 23S rRNA interface [nucleotide binding]; other site 574556002412 L7/L12 interface [polypeptide binding]; other site 574556002413 putative thiostrepton binding site; other site 574556002414 L25 interface [polypeptide binding]; other site 574556002415 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 574556002416 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 574556002417 putative homodimer interface [polypeptide binding]; other site 574556002418 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 574556002419 heterodimer interface [polypeptide binding]; other site 574556002420 homodimer interface [polypeptide binding]; other site 574556002421 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 574556002422 elongation factor Tu; Reviewed; Region: PRK00049 574556002423 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 574556002424 G1 box; other site 574556002425 GEF interaction site [polypeptide binding]; other site 574556002426 GTP/Mg2+ binding site [chemical binding]; other site 574556002427 Switch I region; other site 574556002428 G2 box; other site 574556002429 G3 box; other site 574556002430 Switch II region; other site 574556002431 G4 box; other site 574556002432 G5 box; other site 574556002433 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 574556002434 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 574556002435 Antibiotic Binding Site [chemical binding]; other site 574556002436 elongation factor G; Reviewed; Region: PRK00007 574556002437 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 574556002438 G1 box; other site 574556002439 putative GEF interaction site [polypeptide binding]; other site 574556002440 GTP/Mg2+ binding site [chemical binding]; other site 574556002441 Switch I region; other site 574556002442 G2 box; other site 574556002443 G3 box; other site 574556002444 Switch II region; other site 574556002445 G4 box; other site 574556002446 G5 box; other site 574556002447 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 574556002448 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 574556002449 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 574556002450 30S ribosomal protein S7; Validated; Region: PRK05302 574556002451 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 574556002452 S17 interaction site [polypeptide binding]; other site 574556002453 S8 interaction site; other site 574556002454 16S rRNA interaction site [nucleotide binding]; other site 574556002455 streptomycin interaction site [chemical binding]; other site 574556002456 23S rRNA interaction site [nucleotide binding]; other site 574556002457 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 574556002458 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 574556002459 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 574556002460 active site 574556002461 metal binding site [ion binding]; metal-binding site 574556002462 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 574556002463 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 574556002464 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 574556002465 translocation protein TolB; Provisional; Region: tolB; PRK05137 574556002466 TolB amino-terminal domain; Region: TolB_N; pfam04052 574556002467 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 574556002468 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 574556002469 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 574556002470 NAD(P) binding pocket [chemical binding]; other site 574556002471 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 574556002472 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 574556002473 COQ9; Region: COQ9; pfam08511 574556002474 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 574556002475 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 574556002476 HlyD family secretion protein; Region: HlyD_3; pfam13437 574556002477 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 574556002478 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 574556002479 dimer interface [polypeptide binding]; other site 574556002480 conserved gate region; other site 574556002481 putative PBP binding loops; other site 574556002482 ABC-ATPase subunit interface; other site 574556002483 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 574556002484 dimer interface [polypeptide binding]; other site 574556002485 conserved gate region; other site 574556002486 putative PBP binding loops; other site 574556002487 ABC-ATPase subunit interface; other site 574556002488 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 574556002489 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 574556002490 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 574556002491 FMN binding site [chemical binding]; other site 574556002492 substrate binding site [chemical binding]; other site 574556002493 putative catalytic residue [active] 574556002494 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 574556002495 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 574556002496 Cu(I) binding site [ion binding]; other site 574556002497 PBP superfamily domain; Region: PBP_like_2; cl17296 574556002498 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 574556002499 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 574556002500 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 574556002501 CoA-ligase; Region: Ligase_CoA; pfam00549 574556002502 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 574556002503 CoA binding domain; Region: CoA_binding; smart00881 574556002504 CoA-ligase; Region: Ligase_CoA; pfam00549 574556002505 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 574556002506 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 574556002507 motif 1; other site 574556002508 active site 574556002509 motif 2; other site 574556002510 motif 3; other site 574556002511 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 574556002512 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 574556002513 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 574556002514 dimer interface [polypeptide binding]; other site 574556002515 conserved gate region; other site 574556002516 putative PBP binding loops; other site 574556002517 ABC-ATPase subunit interface; other site 574556002518 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 574556002519 putative hydrolase; Provisional; Region: PRK02113 574556002520 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 574556002521 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 574556002522 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 574556002523 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 574556002524 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 574556002525 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 574556002526 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 574556002527 active site 574556002528 phosphorylation site [posttranslational modification] 574556002529 intermolecular recognition site; other site 574556002530 dimerization interface [polypeptide binding]; other site 574556002531 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 574556002532 Walker A motif; other site 574556002533 ATP binding site [chemical binding]; other site 574556002534 Walker B motif; other site 574556002535 arginine finger; other site 574556002536 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 574556002537 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 574556002538 Cell division protein FtsQ; Region: FtsQ; pfam03799 574556002539 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 574556002540 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 574556002541 ATP-grasp domain; Region: ATP-grasp_4; cl17255 574556002542 glutathione synthetase, prokaryotic; Region: glut_syn; TIGR01380 574556002543 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 574556002544 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 574556002545 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 574556002546 BON domain; Region: BON; pfam04972 574556002547 BON domain; Region: BON; pfam04972 574556002548 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 574556002549 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 574556002550 dimer interface [polypeptide binding]; other site 574556002551 anticodon binding site; other site 574556002552 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 574556002553 homodimer interface [polypeptide binding]; other site 574556002554 motif 1; other site 574556002555 active site 574556002556 motif 2; other site 574556002557 GAD domain; Region: GAD; pfam02938 574556002558 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 574556002559 active site 574556002560 motif 3; other site 574556002561 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 574556002562 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 574556002563 motif II; other site 574556002564 RDD family; Region: RDD; pfam06271 574556002565 pyruvate phosphate dikinase; Provisional; Region: PRK09279 574556002566 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 574556002567 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 574556002568 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 574556002569 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 574556002570 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 574556002571 Cytochrome c2 [Energy production and conversion]; Region: COG3474 574556002572 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 574556002573 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 574556002574 Zinc finger-containing protein; Region: zf-C4H2; pfam10146 574556002575 Major surface protein 1B; Region: MSP1b; pfam03429 574556002576 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14187 574556002577 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 574556002578 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 574556002579 homodimer interface [polypeptide binding]; other site 574556002580 NADP binding site [chemical binding]; other site 574556002581 substrate binding site [chemical binding]; other site 574556002582 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 574556002583 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 574556002584 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 574556002585 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 574556002586 catalytic site [active] 574556002587 G-X2-G-X-G-K; other site 574556002588 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 574556002589 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14600 574556002590 RuvA N terminal domain; Region: RuvA_N; pfam01330 574556002591 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 574556002592 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 574556002593 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 574556002594 Walker A motif; other site 574556002595 ATP binding site [chemical binding]; other site 574556002596 Walker B motif; other site 574556002597 arginine finger; other site 574556002598 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 574556002599 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 574556002600 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 574556002601 putative substrate translocation pore; other site 574556002602 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 574556002603 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 574556002604 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 574556002605 catalytic loop [active] 574556002606 iron binding site [ion binding]; other site 574556002607 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 574556002608 L-aspartate oxidase; Provisional; Region: PRK06175 574556002609 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 574556002610 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 574556002611 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 574556002612 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574556002613 Walker A/P-loop; other site 574556002614 ATP binding site [chemical binding]; other site 574556002615 Q-loop/lid; other site 574556002616 ABC transporter signature motif; other site 574556002617 Walker B; other site 574556002618 D-loop; other site 574556002619 H-loop/switch region; other site 574556002620 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 574556002621 putative iron binding site [ion binding]; other site 574556002622 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 574556002623 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 574556002624 dimer interface [polypeptide binding]; other site 574556002625 active site 574556002626 glycine-pyridoxal phosphate binding site [chemical binding]; other site 574556002627 folate binding site [chemical binding]; other site 574556002628 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 574556002629 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 574556002630 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 574556002631 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 574556002632 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 574556002633 Colicin V production protein; Region: Colicin_V; pfam02674 574556002634 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 574556002635 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 574556002636 DNA repair protein RadA; Provisional; Region: PRK11823 574556002637 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 574556002638 Walker A motif; other site 574556002639 ATP binding site [chemical binding]; other site 574556002640 Walker B motif; other site 574556002641 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 574556002642 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 574556002643 catalytic residues [active] 574556002644 central insert; other site 574556002645 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 574556002646 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 574556002647 putative GSH binding site [chemical binding]; other site 574556002648 catalytic residues [active] 574556002649 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 574556002650 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 574556002651 nucleotide binding pocket [chemical binding]; other site 574556002652 K-X-D-G motif; other site 574556002653 catalytic site [active] 574556002654 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 574556002655 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 574556002656 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 574556002657 Dimer interface [polypeptide binding]; other site 574556002658 BRCT sequence motif; other site 574556002659 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 574556002660 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 574556002661 catalytic site [active] 574556002662 putative active site [active] 574556002663 putative substrate binding site [chemical binding]; other site 574556002664 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 574556002665 HAMP domain; Region: HAMP; pfam00672 574556002666 dimerization interface [polypeptide binding]; other site 574556002667 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 574556002668 dimer interface [polypeptide binding]; other site 574556002669 phosphorylation site [posttranslational modification] 574556002670 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 574556002671 ATP binding site [chemical binding]; other site 574556002672 Mg2+ binding site [ion binding]; other site 574556002673 G-X-G motif; other site 574556002674 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 574556002675 DNA-binding site [nucleotide binding]; DNA binding site 574556002676 RNA-binding motif; other site 574556002677 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 574556002678 putative NAD(P) binding site [chemical binding]; other site 574556002679 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 574556002680 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 574556002681 trimer interface [polypeptide binding]; other site 574556002682 active site 574556002683 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 574556002684 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 574556002685 hinge; other site 574556002686 active site 574556002687 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 574556002688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 574556002689 Walker A/P-loop; other site 574556002690 ATP binding site [chemical binding]; other site 574556002691 Q-loop/lid; other site 574556002692 ABC transporter signature motif; other site 574556002693 Walker B; other site 574556002694 D-loop; other site 574556002695 H-loop/switch region; other site 574556002696 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 574556002697 oligomerization interface [polypeptide binding]; other site 574556002698 active site 574556002699 metal binding site [ion binding]; metal-binding site 574556002700 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 574556002701 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 574556002702 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 574556002703 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 574556002704 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 574556002705 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 574556002706 dimer interface [polypeptide binding]; other site 574556002707 motif 1; other site 574556002708 active site 574556002709 motif 2; other site 574556002710 motif 3; other site 574556002711 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 574556002712 anticodon binding site; other site 574556002713 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 574556002714 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 574556002715 ATP binding site [chemical binding]; other site 574556002716 active site 574556002717 substrate binding site [chemical binding]; other site 574556002718 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 574556002719 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 574556002720 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 574556002721 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 574556002722 catalytic residue [active] 574556002723 putative FPP diphosphate binding site; other site 574556002724 putative FPP binding hydrophobic cleft; other site 574556002725 dimer interface [polypeptide binding]; other site 574556002726 putative IPP diphosphate binding site; other site 574556002727 ribosome recycling factor; Reviewed; Region: frr; PRK00083 574556002728 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 574556002729 hinge region; other site 574556002730 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 574556002731 putative nucleotide binding site [chemical binding]; other site 574556002732 uridine monophosphate binding site [chemical binding]; other site 574556002733 homohexameric interface [polypeptide binding]; other site 574556002734 Protein of unknown function; Region: DUF3971; pfam13116 574556002735 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 574556002736 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 574556002737 RNA/DNA hybrid binding site [nucleotide binding]; other site 574556002738 active site 574556002739 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 574556002740 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 574556002741 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 574556002742 ATP binding site [chemical binding]; other site 574556002743 putative Mg++ binding site [ion binding]; other site 574556002744 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 574556002745 nucleotide binding region [chemical binding]; other site 574556002746 ATP-binding site [chemical binding]; other site 574556002747 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 574556002748 Major surface protein 1B; Region: MSP1b; pfam03429 574556002749 Major surface protein 1B; Region: MSP1b; pfam03429 574556002750 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 574556002751 Lumazine binding domain; Region: Lum_binding; pfam00677 574556002752 Lumazine binding domain; Region: Lum_binding; pfam00677 574556002753 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 574556002754 FMN binding site [chemical binding]; other site 574556002755 substrate binding site [chemical binding]; other site 574556002756 putative catalytic residue [active] 574556002757 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 574556002758 Peptidase family M23; Region: Peptidase_M23; pfam01551 574556002759 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 574556002760 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 574556002761 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 574556002762 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 574556002763 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 574556002764 catalytic residues [active] 574556002765 preprotein translocase subunit SecB; Validated; Region: PRK05751 574556002766 SecA binding site; other site 574556002767 Preprotein binding site; other site 574556002768 Tim44-like domain; Region: Tim44; pfam04280 574556002769 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 574556002770 putative substrate translocation pore; other site 574556002771 Major Facilitator Superfamily; Region: MFS_1; pfam07690 574556002772 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 574556002773 thymidylate kinase; Validated; Region: tmk; PRK00698 574556002774 TMP-binding site; other site 574556002775 ATP-binding site [chemical binding]; other site 574556002776 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 574556002777 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 574556002778 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 574556002779 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 574556002780 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 574556002781 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 574556002782 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 574556002783 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 574556002784 active site 574556002785 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 574556002786 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 574556002787 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 574556002788 tetramer interface [polypeptide binding]; other site 574556002789 TPP-binding site [chemical binding]; other site 574556002790 heterodimer interface [polypeptide binding]; other site 574556002791 phosphorylation loop region [posttranslational modification] 574556002792 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 574556002793 VirB7 interaction site; other site 574556002794 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 574556002795 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 574556002796 catalytic residues [active] 574556002797 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 574556002798 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 574556002799 Membrane transport protein; Region: Mem_trans; cl09117 574556002800 TrbC/VIRB2 family; Region: TrbC; pfam04956 574556002801 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 574556002802 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 574556002803 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 574556002804 HSP70 interaction site [polypeptide binding]; other site 574556002805 TrbC/VIRB2 family; Region: TrbC; pfam04956 574556002806 recombinase A; Provisional; Region: recA; PRK09354 574556002807 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 574556002808 hexamer interface [polypeptide binding]; other site 574556002809 Walker A motif; other site 574556002810 ATP binding site [chemical binding]; other site 574556002811 Walker B motif; other site 574556002812 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574556002813 active site 574556002814 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 574556002815 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 574556002816 ATP binding site [chemical binding]; other site 574556002817 substrate interface [chemical binding]; other site 574556002818 Surface antigen; Region: Surface_Ag_2; pfam01617 574556002819 TrbC/VIRB2 family; Region: TrbC; pfam04956 574556002820 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 574556002821 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 574556002822 active site 574556002823 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 574556002824 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 574556002825 metal binding site [ion binding]; metal-binding site 574556002826 dimer interface [polypeptide binding]; other site 574556002827 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 574556002828 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 574556002829 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 574556002830 TrkA-N domain; Region: TrkA_N; pfam02254 574556002831 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 574556002832 putative catalytic residue [active] 574556002833 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 574556002834 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 574556002835 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 574556002836 alpha subunit interface [polypeptide binding]; other site 574556002837 TPP binding site [chemical binding]; other site 574556002838 heterodimer interface [polypeptide binding]; other site 574556002839 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 574556002840 protease TldD; Provisional; Region: tldD; PRK10735 574556002841 GTP-binding protein YchF; Reviewed; Region: PRK09601 574556002842 YchF GTPase; Region: YchF; cd01900 574556002843 G1 box; other site 574556002844 GTP/Mg2+ binding site [chemical binding]; other site 574556002845 Switch I region; other site 574556002846 G2 box; other site 574556002847 Switch II region; other site 574556002848 G3 box; other site 574556002849 G4 box; other site 574556002850 G5 box; other site 574556002851 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 574556002852 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 574556002853 homotrimer interaction site [polypeptide binding]; other site 574556002854 zinc binding site [ion binding]; other site 574556002855 CDP-binding sites; other site 574556002856 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 574556002857 substrate binding site; other site 574556002858 dimer interface; other site