-- dump date 20140618_204347 -- class Genbank::misc_feature -- table misc_feature_note -- id note 212042000001 DNA polymerase I; Provisional; Region: PRK05755 212042000002 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 212042000003 active site 212042000004 metal binding site 1 [ion binding]; metal-binding site 212042000005 putative 5' ssDNA interaction site; other site 212042000006 metal binding site 3; metal-binding site 212042000007 metal binding site 2 [ion binding]; metal-binding site 212042000008 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 212042000009 putative DNA binding site [nucleotide binding]; other site 212042000010 putative metal binding site [ion binding]; other site 212042000011 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 212042000012 active site 212042000013 catalytic site [active] 212042000014 substrate binding site [chemical binding]; other site 212042000015 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 212042000016 active site 212042000017 DNA binding site [nucleotide binding] 212042000018 catalytic site [active] 212042000019 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 212042000020 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 212042000021 substrate binding site [chemical binding]; other site 212042000022 hexamer interface [polypeptide binding]; other site 212042000023 metal binding site [ion binding]; metal-binding site 212042000024 Permease; Region: Permease; pfam02405 212042000025 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 212042000026 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212042000027 Walker A/P-loop; other site 212042000028 ATP binding site [chemical binding]; other site 212042000029 Q-loop/lid; other site 212042000030 ABC transporter signature motif; other site 212042000031 Walker B; other site 212042000032 D-loop; other site 212042000033 H-loop/switch region; other site 212042000034 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 212042000035 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 212042000036 conserved cys residue [active] 212042000037 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 212042000038 S-adenosylmethionine synthetase; Provisional; Region: PRK12459 212042000039 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 212042000040 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 212042000041 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 212042000042 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 212042000043 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 212042000044 motif 1; other site 212042000045 dimer interface [polypeptide binding]; other site 212042000046 active site 212042000047 motif 2; other site 212042000048 motif 3; other site 212042000049 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 212042000050 chaperone protein DnaJ; Provisional; Region: PRK10767 212042000051 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 212042000052 HSP70 interaction site [polypeptide binding]; other site 212042000053 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 212042000054 substrate binding site [polypeptide binding]; other site 212042000055 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 212042000056 Zn binding sites [ion binding]; other site 212042000057 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 212042000058 dimer interface [polypeptide binding]; other site 212042000059 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 212042000060 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 212042000061 dimerization interface [polypeptide binding]; other site 212042000062 active site 212042000063 membrane protein; Provisional; Region: PRK14396 212042000064 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 212042000065 active site 212042000066 putative DNA-binding cleft [nucleotide binding]; other site 212042000067 dimer interface [polypeptide binding]; other site 212042000068 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 212042000069 Subunit III/VIIa interface [polypeptide binding]; other site 212042000070 Phospholipid binding site [chemical binding]; other site 212042000071 Subunit I/III interface [polypeptide binding]; other site 212042000072 Subunit III/VIb interface [polypeptide binding]; other site 212042000073 Subunit III/VIa interface; other site 212042000074 Subunit III/Vb interface [polypeptide binding]; other site 212042000075 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 212042000076 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 212042000077 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 212042000078 Transporter associated domain; Region: CorC_HlyC; smart01091 212042000079 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 212042000080 Phage-related protein [Function unknown]; Region: COG4695 212042000081 Phage portal protein; Region: Phage_portal; pfam04860 212042000082 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 212042000083 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 212042000084 S-adenosylmethionine binding site [chemical binding]; other site 212042000085 quinolinate synthetase; Provisional; Region: PRK09375 212042000086 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 212042000087 4Fe-4S binding domain; Region: Fer4; pfam00037 212042000088 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 212042000089 alternate gene name: major outer membrane protein C-15 Infect. Immun. 70 (9), 5295-5298 (2002); identified by similarity to GB:AAL78181.1; similar to P44-63 outer membrane protein, silent 212042000090 similar to P44-64 outer membrane protein, silent 212042000091 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 212042000092 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 212042000093 active site 212042000094 HIGH motif; other site 212042000095 dimer interface [polypeptide binding]; other site 212042000096 KMSKS motif; other site 212042000097 GrpE; Region: GrpE; pfam01025 212042000098 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 212042000099 dimer interface [polypeptide binding]; other site 212042000100 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 212042000101 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 212042000102 catalytic motif [active] 212042000103 Zn binding site [ion binding]; other site 212042000104 RibD C-terminal domain; Region: RibD_C; cl17279 212042000105 CTP synthetase; Validated; Region: pyrG; PRK05380 212042000106 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 212042000107 Catalytic site [active] 212042000108 active site 212042000109 UTP binding site [chemical binding]; other site 212042000110 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 212042000111 active site 212042000112 putative oxyanion hole; other site 212042000113 catalytic triad [active] 212042000114 Preprotein translocase SecG subunit; Region: SecG; pfam03840 212042000115 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 212042000116 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 212042000117 active site 212042000118 DNA binding site [nucleotide binding] 212042000119 Int/Topo IB signature motif; other site 212042000120 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 212042000121 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 212042000122 Walker A/P-loop; other site 212042000123 ATP binding site [chemical binding]; other site 212042000124 Q-loop/lid; other site 212042000125 ABC transporter signature motif; other site 212042000126 Walker B; other site 212042000127 D-loop; other site 212042000128 H-loop/switch region; other site 212042000129 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 212042000130 Malic enzyme, N-terminal domain; Region: malic; pfam00390 212042000131 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 212042000132 putative NAD(P) binding site [chemical binding]; other site 212042000133 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 212042000134 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 212042000135 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12662 212042000136 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 212042000137 mce related protein; Region: MCE; pfam02470 212042000138 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; pfam05071 212042000139 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 212042000140 ATP cone domain; Region: ATP-cone; pfam03477 212042000141 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 212042000142 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 212042000143 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 212042000144 Uncharacterized conserved protein [Function unknown]; Region: COG2835 212042000145 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 212042000146 metabolite-proton symporter; Region: 2A0106; TIGR00883 212042000147 putative substrate translocation pore; other site 212042000148 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 212042000149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 212042000150 NAD(P) binding site [chemical binding]; other site 212042000151 active site 212042000152 S-adenosylmethionine synthetase; Provisional; Region: PRK12459 212042000153 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 212042000154 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 212042000155 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 212042000156 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 212042000157 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 212042000158 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 212042000159 dimer interface [polypeptide binding]; other site 212042000160 motif 1; other site 212042000161 active site 212042000162 motif 2; other site 212042000163 motif 3; other site 212042000164 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 212042000165 23S rRNA binding site [nucleotide binding]; other site 212042000166 L21 binding site [polypeptide binding]; other site 212042000167 L13 binding site [polypeptide binding]; other site 212042000168 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 212042000169 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 212042000170 transcription termination factor Rho; Provisional; Region: rho; PRK09376 212042000171 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 212042000172 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 212042000173 RNA binding site [nucleotide binding]; other site 212042000174 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 212042000175 multimer interface [polypeptide binding]; other site 212042000176 Walker A motif; other site 212042000177 ATP binding site [chemical binding]; other site 212042000178 Walker B motif; other site 212042000179 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 212042000180 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 212042000181 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 212042000182 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 212042000183 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 212042000184 HSP70 interaction site [polypeptide binding]; other site 212042000185 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 212042000186 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 212042000187 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 212042000188 thiS-thiF/thiG interaction site; other site 212042000189 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 212042000190 ThiS interaction site; other site 212042000191 putative active site [active] 212042000192 tetramer interface [polypeptide binding]; other site 212042000193 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 212042000194 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 212042000195 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 212042000196 active site 212042000197 HIGH motif; other site 212042000198 nucleotide binding site [chemical binding]; other site 212042000199 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 212042000200 active site 212042000201 KMSKS motif; other site 212042000202 SurA N-terminal domain; Region: SurA_N_3; cl07813 212042000203 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 212042000204 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 212042000205 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 212042000206 S-adenosylmethionine binding site [chemical binding]; other site 212042000207 similar to P44-65 outer membrane protein, silent 212042000208 Predicted permeases [General function prediction only]; Region: COG0679 212042000209 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 212042000210 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 212042000211 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 212042000212 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 212042000213 catalytic residues [active] 212042000214 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 212042000215 VirB7 interaction site; other site 212042000216 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 212042000217 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 212042000218 tetramer interface [polypeptide binding]; other site 212042000219 TPP-binding site [chemical binding]; other site 212042000220 heterodimer interface [polypeptide binding]; other site 212042000221 phosphorylation loop region [posttranslational modification] 212042000222 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 212042000223 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 212042000224 active site 212042000225 cosubstrate binding site; other site 212042000226 substrate binding site [chemical binding]; other site 212042000227 catalytic site [active] 212042000228 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 212042000229 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 212042000230 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 212042000231 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 212042000232 active site 212042000233 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 212042000234 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 212042000235 Phage-related protein [Function unknown]; Region: COG4695; cl01923 212042000236 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 212042000237 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 212042000238 thymidylate kinase; Validated; Region: tmk; PRK00698 212042000239 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 212042000240 TMP-binding site; other site 212042000241 ATP-binding site [chemical binding]; other site 212042000242 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 212042000243 putative substrate translocation pore; other site 212042000244 Major Facilitator Superfamily; Region: MFS_1; pfam07690 212042000245 Tim44-like domain; Region: Tim44; pfam04280 212042000246 Preprotein translocase subunit SecB; Region: SecB; pfam02556 212042000247 SecA binding site; other site 212042000248 Preprotein binding site; other site 212042000249 Thioredoxin; Region: Thioredoxin_4; pfam13462 212042000250 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 212042000251 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 212042000252 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 212042000253 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 212042000254 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 212042000255 FMN binding site [chemical binding]; other site 212042000256 substrate binding site [chemical binding]; other site 212042000257 putative catalytic residue [active] 212042000258 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 212042000259 substrate binding site [chemical binding]; other site 212042000260 nucleotide binding site [chemical binding]; other site 212042000261 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 212042000262 Lumazine binding domain; Region: Lum_binding; pfam00677 212042000263 Lumazine binding domain; Region: Lum_binding; pfam00677 212042000264 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 212042000265 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 212042000266 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 212042000267 ATP binding site [chemical binding]; other site 212042000268 putative Mg++ binding site [ion binding]; other site 212042000269 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 212042000270 nucleotide binding region [chemical binding]; other site 212042000271 ATP-binding site [chemical binding]; other site 212042000272 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 212042000273 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 212042000274 RNA/DNA hybrid binding site [nucleotide binding]; other site 212042000275 active site 212042000276 Protein of unknown function; Region: DUF3971; pfam13116 212042000277 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 212042000278 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 212042000279 putative nucleotide binding site [chemical binding]; other site 212042000280 uridine monophosphate binding site [chemical binding]; other site 212042000281 homohexameric interface [polypeptide binding]; other site 212042000282 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 212042000283 ribosome recycling factor; Reviewed; Region: frr; PRK00083 212042000284 hinge region; other site 212042000285 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 212042000286 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 212042000287 similar to P44-66 outer membrane protein, silent 212042000288 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 212042000289 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 212042000290 ATP binding site [chemical binding]; other site 212042000291 active site 212042000292 substrate binding site [chemical binding]; other site 212042000293 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 212042000294 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 212042000295 dimer interface [polypeptide binding]; other site 212042000296 motif 1; other site 212042000297 active site 212042000298 motif 2; other site 212042000299 motif 3; other site 212042000300 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 212042000301 anticodon binding site; other site 212042000302 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 212042000303 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 212042000304 catalytic residues [active] 212042000305 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 212042000306 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 212042000307 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 212042000308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212042000309 Walker A/P-loop; other site 212042000310 ATP binding site [chemical binding]; other site 212042000311 Q-loop/lid; other site 212042000312 ABC transporter signature motif; other site 212042000313 Walker B; other site 212042000314 D-loop; other site 212042000315 H-loop/switch region; other site 212042000316 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 212042000317 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 212042000318 trimer interface [polypeptide binding]; other site 212042000319 active site 212042000320 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 212042000321 similar to P44-21 outer membrane protein, silent 212042000322 similar to P44-80 outer membrane protein, truncation 212042000323 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 212042000324 DNA-binding site [nucleotide binding]; DNA binding site 212042000325 RNA-binding motif; other site 212042000326 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 212042000327 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 212042000328 dimerization interface [polypeptide binding]; other site 212042000329 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 212042000330 dimer interface [polypeptide binding]; other site 212042000331 phosphorylation site [posttranslational modification] 212042000332 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 212042000333 ATP binding site [chemical binding]; other site 212042000334 Mg2+ binding site [ion binding]; other site 212042000335 G-X-G motif; other site 212042000336 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 212042000337 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 212042000338 catalytic site [active] 212042000339 putative active site [active] 212042000340 putative substrate binding site [chemical binding]; other site 212042000341 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 212042000342 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 212042000343 nucleotide binding pocket [chemical binding]; other site 212042000344 K-X-D-G motif; other site 212042000345 catalytic site [active] 212042000346 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 212042000347 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 212042000348 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 212042000349 Dimer interface [polypeptide binding]; other site 212042000350 BRCT sequence motif; other site 212042000351 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 212042000352 putative GSH binding site [chemical binding]; other site 212042000353 catalytic residues [active] 212042000354 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 212042000355 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 212042000356 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 212042000357 Surface antigen; Region: Surface_Ag_2; pfam01617 212042000358 similar to P44-81 outer membrane protein, truncation 212042000359 Surface antigen; Region: Surface_Ag_2; pfam01617 212042000360 Surface antigen; Region: Surface_Ag_2; pfam01617 212042000361 Surface antigen; Region: Surface_Ag_2; pfam01617 212042000362 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 212042000363 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 212042000364 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 212042000365 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 212042000366 Colicin V production protein; Region: Colicin_V; pfam02674 212042000367 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 212042000368 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 212042000369 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 212042000370 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 212042000371 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 212042000372 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 212042000373 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 212042000374 dimer interface [polypeptide binding]; other site 212042000375 active site 212042000376 glycine-pyridoxal phosphate binding site [chemical binding]; other site 212042000377 folate binding site [chemical binding]; other site 212042000378 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 212042000379 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 212042000380 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 212042000381 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212042000382 Walker A/P-loop; other site 212042000383 ATP binding site [chemical binding]; other site 212042000384 Q-loop/lid; other site 212042000385 ABC transporter signature motif; other site 212042000386 Walker B; other site 212042000387 D-loop; other site 212042000388 H-loop/switch region; other site 212042000389 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 212042000390 L-aspartate oxidase; Provisional; Region: PRK06175 212042000391 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 212042000392 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 212042000393 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 212042000394 catalytic loop [active] 212042000395 iron binding site [ion binding]; other site 212042000396 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 212042000397 L-aspartate oxidase; Provisional; Region: PRK06175 212042000398 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 212042000399 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 212042000400 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 212042000401 catalytic loop [active] 212042000402 iron binding site [ion binding]; other site 212042000403 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 212042000404 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 212042000405 putative substrate translocation pore; other site 212042000406 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 212042000407 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 212042000408 motif 1; other site 212042000409 dimer interface [polypeptide binding]; other site 212042000410 active site 212042000411 motif 2; other site 212042000412 motif 3; other site 212042000413 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 212042000414 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 212042000415 Walker A motif; other site 212042000416 ATP binding site [chemical binding]; other site 212042000417 Walker B motif; other site 212042000418 arginine finger; other site 212042000419 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 212042000420 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14600 212042000421 RuvA N terminal domain; Region: RuvA_N; pfam01330 212042000422 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 212042000423 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 212042000424 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 212042000425 catalytic site [active] 212042000426 G-X2-G-X-G-K; other site 212042000427 Surface antigen; Region: Surface_Ag_2; pfam01617 212042000428 Surface antigen; Region: Surface_Ag_2; pfam01617 212042000429 Surface antigen; Region: Surface_Ag_2; pfam01617 212042000430 Surface antigen; Region: Surface_Ag_2; pfam01617 212042000431 Surface antigen; Region: Surface_Ag_2; pfam01617 212042000432 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14187 212042000433 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 212042000434 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 212042000435 homodimer interface [polypeptide binding]; other site 212042000436 NADP binding site [chemical binding]; other site 212042000437 substrate binding site [chemical binding]; other site 212042000438 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 212042000439 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 212042000440 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 212042000441 Cytochrome c2 [Energy production and conversion]; Region: COG3474 212042000442 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 212042000443 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 212042000444 pyruvate phosphate dikinase; Provisional; Region: PRK09279 212042000445 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 212042000446 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 212042000447 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 212042000448 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 212042000449 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 212042000450 motif II; other site 212042000451 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 212042000452 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 212042000453 dimer interface [polypeptide binding]; other site 212042000454 anticodon binding site; other site 212042000455 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 212042000456 homodimer interface [polypeptide binding]; other site 212042000457 motif 1; other site 212042000458 active site 212042000459 motif 2; other site 212042000460 GAD domain; Region: GAD; pfam02938 212042000461 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 212042000462 active site 212042000463 motif 3; other site 212042000464 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 212042000465 BON domain; Region: BON; pfam04972 212042000466 BON domain; Region: BON; pfam04972 212042000467 glutathione synthetase; Provisional; Region: PRK05246 212042000468 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 212042000469 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 212042000470 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 212042000471 Cell division protein FtsQ; Region: FtsQ; pfam03799 212042000472 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 212042000473 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 212042000474 active site 212042000475 phosphorylation site [posttranslational modification] 212042000476 intermolecular recognition site; other site 212042000477 dimerization interface [polypeptide binding]; other site 212042000478 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 212042000479 Walker A motif; other site 212042000480 ATP binding site [chemical binding]; other site 212042000481 Walker B motif; other site 212042000482 arginine finger; other site 212042000483 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 212042000484 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 212042000485 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 212042000486 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 212042000487 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 212042000488 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 212042000489 active site 212042000490 DNA binding site [nucleotide binding] 212042000491 Int/Topo IB signature motif; other site 212042000492 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 212042000493 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 212042000494 dimerization interface [polypeptide binding]; other site 212042000495 putative ATP binding site [chemical binding]; other site 212042000496 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 212042000497 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 212042000498 I-site; other site 212042000499 active site 212042000500 metal binding site [ion binding]; metal-binding site 212042000501 Oligomerisation domain; Region: Oligomerisation; pfam02410 212042000502 Peptidase family M48; Region: Peptidase_M48; cl12018 212042000503 TPR repeat; Region: TPR_11; pfam13414 212042000504 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 212042000505 TPR motif; other site 212042000506 binding surface 212042000507 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 212042000508 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 212042000509 dimerization interface [polypeptide binding]; other site 212042000510 putative ATP binding site [chemical binding]; other site 212042000511 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 212042000512 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 212042000513 catalytic center binding site [active] 212042000514 ATP binding site [chemical binding]; other site 212042000515 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 212042000516 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 212042000517 dimerization interface [polypeptide binding]; other site 212042000518 ATP binding site [chemical binding]; other site 212042000519 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 212042000520 dimerization interface [polypeptide binding]; other site 212042000521 ATP binding site [chemical binding]; other site 212042000522 identified by similarity to GB:AAP20811.1; similar to P44-88 outer membrane protein, silent 212042000523 Sec24-related protein; Provisional; Region: PTZ00395 212042000524 biotin synthase; Region: bioB; TIGR00433 212042000525 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 212042000526 FeS/SAM binding site; other site 212042000527 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 212042000528 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 212042000529 PAS domain; Region: PAS_5; pfam07310 212042000530 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 212042000531 Peptidase family M23; Region: Peptidase_M23; pfam01551 212042000532 fructose 1,6-bisphosphatase II; Reviewed; Region: glpX; PRK09479 212042000533 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 212042000534 active site 212042000535 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 212042000536 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 212042000537 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 212042000538 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 212042000539 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 212042000540 putative active site [active] 212042000541 catalytic triad [active] 212042000542 Surface antigen; Region: Surface_Ag_2; pfam01617 212042000543 similar to P44-67 outer membrane protein, silent 212042000544 similar to P44-68 outer membrane protein, silent 212042000545 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 212042000546 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 212042000547 active site 212042000548 substrate binding site [chemical binding]; other site 212042000549 cosubstrate binding site; other site 212042000550 catalytic site [active] 212042000551 multifunctional aminopeptidase A; Provisional; Region: PRK00913 212042000552 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 212042000553 interface (dimer of trimers) [polypeptide binding]; other site 212042000554 Substrate-binding/catalytic site; other site 212042000555 Zn-binding sites [ion binding]; other site 212042000556 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 212042000557 active site 212042000558 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 212042000559 Clp amino terminal domain; Region: Clp_N; pfam02861 212042000560 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 212042000561 Walker A motif; other site 212042000562 ATP binding site [chemical binding]; other site 212042000563 Walker B motif; other site 212042000564 arginine finger; other site 212042000565 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 212042000566 Walker A motif; other site 212042000567 ATP binding site [chemical binding]; other site 212042000568 Walker B motif; other site 212042000569 arginine finger; other site 212042000570 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 212042000571 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 212042000572 classical (c) SDRs; Region: SDR_c; cd05233 212042000573 NAD(P) binding site [chemical binding]; other site 212042000574 active site 212042000575 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 212042000576 ring oligomerisation interface [polypeptide binding]; other site 212042000577 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 212042000578 ATP/Mg binding site [chemical binding]; other site 212042000579 stacking interactions; other site 212042000580 hinge regions; other site 212042000581 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 212042000582 oligomerisation interface [polypeptide binding]; other site 212042000583 mobile loop; other site 212042000584 roof hairpin; other site 212042000585 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 212042000586 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 212042000587 MPN+ (JAMM) motif; other site 212042000588 Zinc-binding site [ion binding]; other site 212042000589 lipoate-protein ligase B; Provisional; Region: PRK14341 212042000590 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 212042000591 dihydroorotase; Validated; Region: pyrC; PRK09357 212042000592 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 212042000593 active site 212042000594 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 212042000595 fumarate hydratase; Reviewed; Region: fumC; PRK00485 212042000596 Class II fumarases; Region: Fumarase_classII; cd01362 212042000597 active site 212042000598 tetramer interface [polypeptide binding]; other site 212042000599 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 212042000600 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 212042000601 ATP-grasp domain; Region: ATP-grasp_4; cl17255 212042000602 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 212042000603 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 212042000604 ATP-grasp domain; Region: ATP-grasp_4; cl17255 212042000605 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 212042000606 IMP binding site; other site 212042000607 dimer interface [polypeptide binding]; other site 212042000608 interdomain contacts; other site 212042000609 partial ornithine binding site; other site 212042000610 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 212042000611 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 212042000612 dihydropteroate synthase; Region: DHPS; TIGR01496 212042000613 substrate binding pocket [chemical binding]; other site 212042000614 dimer interface [polypeptide binding]; other site 212042000615 inhibitor binding site; inhibition site 212042000616 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 212042000617 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 212042000618 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212042000619 Walker A/P-loop; other site 212042000620 ATP binding site [chemical binding]; other site 212042000621 Q-loop/lid; other site 212042000622 ABC transporter signature motif; other site 212042000623 Walker B; other site 212042000624 D-loop; other site 212042000625 H-loop/switch region; other site 212042000626 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 212042000627 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 212042000628 NADP binding site [chemical binding]; other site 212042000629 dimer interface [polypeptide binding]; other site 212042000630 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 212042000631 Family description; Region: UvrD_C_2; pfam13538 212042000632 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 212042000633 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 212042000634 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 212042000635 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 212042000636 Predicted ATPase [General function prediction only]; Region: COG1485 212042000637 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 212042000638 Walker A motif; other site 212042000639 ATP binding site [chemical binding]; other site 212042000640 Walker B motif; other site 212042000641 ferrochelatase; Reviewed; Region: hemH; PRK00035 212042000642 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 212042000643 C-terminal domain interface [polypeptide binding]; other site 212042000644 active site 212042000645 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 212042000646 active site 212042000647 N-terminal domain interface [polypeptide binding]; other site 212042000648 Cell division protein ZapA; Region: ZapA; pfam05164 212042000649 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 212042000650 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 212042000651 IHF dimer interface [polypeptide binding]; other site 212042000652 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 212042000653 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 212042000654 tandem repeat interface [polypeptide binding]; other site 212042000655 oligomer interface [polypeptide binding]; other site 212042000656 active site residues [active] 212042000657 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 212042000658 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 212042000659 RNA binding site [nucleotide binding]; other site 212042000660 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 212042000661 RNA binding site [nucleotide binding]; other site 212042000662 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 212042000663 RNA binding site [nucleotide binding]; other site 212042000664 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 212042000665 RNA binding site [nucleotide binding]; other site 212042000666 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 212042000667 RNA binding site [nucleotide binding]; other site 212042000668 cytidylate kinase; Provisional; Region: cmk; PRK00023 212042000669 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 212042000670 CMP-binding site; other site 212042000671 The sites determining sugar specificity; other site 212042000672 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 212042000673 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 212042000674 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 212042000675 elongation factor Tu; Reviewed; Region: PRK00049 212042000676 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 212042000677 G1 box; other site 212042000678 GEF interaction site [polypeptide binding]; other site 212042000679 GTP/Mg2+ binding site [chemical binding]; other site 212042000680 Switch I region; other site 212042000681 G2 box; other site 212042000682 G3 box; other site 212042000683 Switch II region; other site 212042000684 G4 box; other site 212042000685 G5 box; other site 212042000686 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 212042000687 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 212042000688 Antibiotic Binding Site [chemical binding]; other site 212042000689 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 212042000690 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 212042000691 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 212042000692 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 212042000693 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 212042000694 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 212042000695 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 212042000696 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 212042000697 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 212042000698 protein-rRNA interface [nucleotide binding]; other site 212042000699 putative translocon binding site; other site 212042000700 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 212042000701 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 212042000702 G-X-X-G motif; other site 212042000703 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 212042000704 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 212042000705 23S rRNA interface [nucleotide binding]; other site 212042000706 5S rRNA interface [nucleotide binding]; other site 212042000707 putative antibiotic binding site [chemical binding]; other site 212042000708 L25 interface [polypeptide binding]; other site 212042000709 L27 interface [polypeptide binding]; other site 212042000710 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 212042000711 putative translocon interaction site; other site 212042000712 signal recognition particle (SRP54) interaction site; other site 212042000713 L23 interface [polypeptide binding]; other site 212042000714 trigger factor interaction site; other site 212042000715 23S rRNA interface [nucleotide binding]; other site 212042000716 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 212042000717 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 212042000718 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 212042000719 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 212042000720 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 212042000721 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 212042000722 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 212042000723 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 212042000724 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 212042000725 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 212042000726 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 212042000727 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 212042000728 5S rRNA interface [nucleotide binding]; other site 212042000729 23S rRNA interface [nucleotide binding]; other site 212042000730 L5 interface [polypeptide binding]; other site 212042000731 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 212042000732 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 212042000733 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 212042000734 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 212042000735 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 212042000736 SecY translocase; Region: SecY; pfam00344 212042000737 adenylate kinase; Reviewed; Region: adk; PRK00279 212042000738 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 212042000739 AMP-binding site [chemical binding]; other site 212042000740 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 212042000741 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 212042000742 30S ribosomal protein S13; Region: bact_S13; TIGR03631 212042000743 30S ribosomal protein S11; Validated; Region: PRK05309 212042000744 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 212042000745 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 212042000746 alphaNTD - beta interaction site [polypeptide binding]; other site 212042000747 alphaNTD homodimer interface [polypeptide binding]; other site 212042000748 alphaNTD - beta' interaction site [polypeptide binding]; other site 212042000749 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 212042000750 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 212042000751 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 212042000752 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 212042000753 putative tRNA-binding site [nucleotide binding]; other site 212042000754 B3/4 domain; Region: B3_4; pfam03483 212042000755 tRNA synthetase B5 domain; Region: B5; smart00874 212042000756 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 212042000757 dimer interface [polypeptide binding]; other site 212042000758 motif 1; other site 212042000759 motif 3; other site 212042000760 motif 2; other site 212042000761 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 212042000762 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 212042000763 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 212042000764 Competence protein; Region: Competence; pfam03772 212042000765 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 212042000766 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 212042000767 Ribonuclease P; Region: Ribonuclease_P; pfam00825 212042000768 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 212042000769 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 212042000770 UbiA prenyltransferase family; Region: UbiA; pfam01040 212042000771 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 212042000772 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14244 212042000773 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 212042000774 Walker A/P-loop; other site 212042000775 ATP binding site [chemical binding]; other site 212042000776 Q-loop/lid; other site 212042000777 ABC transporter signature motif; other site 212042000778 Walker B; other site 212042000779 D-loop; other site 212042000780 H-loop/switch region; other site 212042000781 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 212042000782 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 212042000783 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 212042000784 putative phosphate acyltransferase; Provisional; Region: PRK05331 212042000785 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 212042000786 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 212042000787 dimer interface [polypeptide binding]; other site 212042000788 active site 212042000789 CoA binding pocket [chemical binding]; other site 212042000790 similar to P44 outer membrane protein, N-terminal fragment 212042000791 similar to P44-69 outer membrane protein, silent 212042000792 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 212042000793 nucleoside/Zn binding site; other site 212042000794 dimer interface [polypeptide binding]; other site 212042000795 catalytic motif [active] 212042000796 replicative DNA helicase; Provisional; Region: PRK09165 212042000797 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 212042000798 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 212042000799 Walker A motif; other site 212042000800 ATP binding site [chemical binding]; other site 212042000801 Walker B motif; other site 212042000802 DNA binding loops [nucleotide binding] 212042000803 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 212042000804 NAD binding site [chemical binding]; other site 212042000805 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 212042000806 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 212042000807 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 212042000808 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 212042000809 substrate binding pocket [chemical binding]; other site 212042000810 chain length determination region; other site 212042000811 substrate-Mg2+ binding site; other site 212042000812 catalytic residues [active] 212042000813 aspartate-rich region 1; other site 212042000814 active site lid residues [active] 212042000815 aspartate-rich region 2; other site 212042000816 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 212042000817 Class I ribonucleotide reductase; Region: RNR_I; cd01679 212042000818 active site 212042000819 dimer interface [polypeptide binding]; other site 212042000820 catalytic residues [active] 212042000821 effector binding site; other site 212042000822 R2 peptide binding site; other site 212042000823 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 212042000824 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 212042000825 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 212042000826 GDP-binding site [chemical binding]; other site 212042000827 ACT binding site; other site 212042000828 IMP binding site; other site 212042000829 primosome assembly protein PriA; Validated; Region: PRK05580 212042000830 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 212042000831 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 212042000832 ligand binding site [chemical binding]; other site 212042000833 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 212042000834 Zn binding site [ion binding]; other site 212042000835 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 212042000836 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 212042000837 TPP-binding site [chemical binding]; other site 212042000838 dimer interface [polypeptide binding]; other site 212042000839 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 212042000840 PYR/PP interface [polypeptide binding]; other site 212042000841 dimer interface [polypeptide binding]; other site 212042000842 TPP binding site [chemical binding]; other site 212042000843 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 212042000844 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12603 212042000845 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12670 212042000846 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 212042000847 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 212042000848 RNA binding site [nucleotide binding]; other site 212042000849 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 212042000850 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 212042000851 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 212042000852 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 212042000853 nucleotide binding site [chemical binding]; other site 212042000854 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 212042000855 putative coenzyme Q binding site [chemical binding]; other site 212042000856 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12664 212042000857 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 212042000858 signal recognition particle protein; Provisional; Region: PRK10867 212042000859 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 212042000860 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 212042000861 P loop; other site 212042000862 GTP binding site [chemical binding]; other site 212042000863 Signal peptide binding domain; Region: SRP_SPB; pfam02978 212042000864 GTPase Era; Reviewed; Region: era; PRK00089 212042000865 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 212042000866 G1 box; other site 212042000867 GTP/Mg2+ binding site [chemical binding]; other site 212042000868 Switch I region; other site 212042000869 G2 box; other site 212042000870 Switch II region; other site 212042000871 G3 box; other site 212042000872 G4 box; other site 212042000873 G5 box; other site 212042000874 KH domain; Region: KH_2; pfam07650 212042000875 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 212042000876 active site 212042000877 catalytic site [active] 212042000878 substrate binding site [chemical binding]; other site 212042000879 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 212042000880 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 212042000881 catalytic motif [active] 212042000882 Catalytic residue [active] 212042000883 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 212042000884 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 212042000885 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 212042000886 active site 212042000887 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 212042000888 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 212042000889 active site 212042000890 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 212042000891 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 212042000892 primosome assembly protein PriA; Validated; Region: PRK05580 212042000893 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 212042000894 ATP binding site [chemical binding]; other site 212042000895 putative Mg++ binding site [ion binding]; other site 212042000896 helicase superfamily c-terminal domain; Region: HELICc; smart00490 212042000897 nucleotide binding region [chemical binding]; other site 212042000898 ATP-binding site [chemical binding]; other site 212042000899 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 212042000900 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 212042000901 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 212042000902 RNA binding surface [nucleotide binding]; other site 212042000903 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 212042000904 active site 212042000905 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 212042000906 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 212042000907 ATP-grasp domain; Region: ATP-grasp_4; cl17255 212042000908 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 212042000909 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 212042000910 carboxyltransferase (CT) interaction site; other site 212042000911 biotinylation site [posttranslational modification]; other site 212042000912 lipoyl synthase; Provisional; Region: PRK05481 212042000913 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 212042000914 FeS/SAM binding site; other site 212042000915 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 212042000916 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 212042000917 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 212042000918 dimer interface [polypeptide binding]; other site 212042000919 conserved gate region; other site 212042000920 putative PBP binding loops; other site 212042000921 ABC-ATPase subunit interface; other site 212042000922 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 212042000923 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 212042000924 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 212042000925 type IV secretion system protein VirB3; Provisional; Region: PRK13899 212042000926 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 212042000927 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 212042000928 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212042000929 Walker A/P-loop; other site 212042000930 ATP binding site [chemical binding]; other site 212042000931 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 212042000932 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 212042000933 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 212042000934 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 212042000935 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 212042000936 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 212042000937 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 212042000938 trimer interface [polypeptide binding]; other site 212042000939 active site 212042000940 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 212042000941 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 212042000942 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 212042000943 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 212042000944 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 212042000945 catalytic site [active] 212042000946 subunit interface [polypeptide binding]; other site 212042000947 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 212042000948 phosphoglyceromutase; Provisional; Region: PRK05434 212042000949 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 212042000950 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 212042000951 G1 box; other site 212042000952 GTP/Mg2+ binding site [chemical binding]; other site 212042000953 Switch I region; other site 212042000954 G2 box; other site 212042000955 Switch II region; other site 212042000956 G3 box; other site 212042000957 G4 box; other site 212042000958 G5 box; other site 212042000959 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 212042000960 G1 box; other site 212042000961 GTP/Mg2+ binding site [chemical binding]; other site 212042000962 Switch I region; other site 212042000963 G2 box; other site 212042000964 G3 box; other site 212042000965 Switch II region; other site 212042000966 G4 box; other site 212042000967 G5 box; other site 212042000968 PQQ-like domain; Region: PQQ_2; pfam13360 212042000969 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 212042000970 Trp docking motif [polypeptide binding]; other site 212042000971 active site 212042000972 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 212042000973 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 212042000974 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 212042000975 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 212042000976 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 212042000977 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 212042000978 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 212042000979 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 212042000980 rRNA binding site [nucleotide binding]; other site 212042000981 predicted 30S ribosome binding site; other site 212042000982 Maf-like protein; Region: Maf; pfam02545 212042000983 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 212042000984 active site 212042000985 dimer interface [polypeptide binding]; other site 212042000986 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 212042000987 rRNA interaction site [nucleotide binding]; other site 212042000988 S8 interaction site; other site 212042000989 putative laminin-1 binding site; other site 212042000990 elongation factor Ts; Provisional; Region: tsf; PRK09377 212042000991 UBA/TS-N domain; Region: UBA; pfam00627 212042000992 Elongation factor TS; Region: EF_TS; pfam00889 212042000993 Elongation factor TS; Region: EF_TS; pfam00889 212042000994 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 212042000995 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 212042000996 ABC-ATPase subunit interface; other site 212042000997 dimer interface [polypeptide binding]; other site 212042000998 putative PBP binding regions; other site 212042000999 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 212042001000 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 212042001001 [2Fe-2S] cluster binding site [ion binding]; other site 212042001002 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 212042001003 interchain domain interface [polypeptide binding]; other site 212042001004 intrachain domain interface; other site 212042001005 cytochrome b; Provisional; Region: CYTB; MTH00156 212042001006 heme bH binding site [chemical binding]; other site 212042001007 Qi binding site; other site 212042001008 heme bL binding site [chemical binding]; other site 212042001009 Qo binding site; other site 212042001010 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 212042001011 interchain domain interface [polypeptide binding]; other site 212042001012 intrachain domain interface; other site 212042001013 Qi binding site; other site 212042001014 Qo binding site; other site 212042001015 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 212042001016 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 212042001017 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 212042001018 active site 212042001019 HIGH motif; other site 212042001020 KMSKS motif; other site 212042001021 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 212042001022 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 212042001023 DNA binding site [nucleotide binding] 212042001024 catalytic residue [active] 212042001025 H2TH interface [polypeptide binding]; other site 212042001026 putative catalytic residues [active] 212042001027 turnover-facilitating residue; other site 212042001028 intercalation triad [nucleotide binding]; other site 212042001029 8OG recognition residue [nucleotide binding]; other site 212042001030 putative reading head residues; other site 212042001031 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 212042001032 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 212042001033 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 212042001034 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 212042001035 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 212042001036 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 212042001037 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 212042001038 peptide chain release factor 1; Validated; Region: prfA; PRK00591 212042001039 This domain is found in peptide chain release factors; Region: PCRF; smart00937 212042001040 RF-1 domain; Region: RF-1; pfam00472 212042001041 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 212042001042 G1 box; other site 212042001043 GTP/Mg2+ binding site [chemical binding]; other site 212042001044 Switch I region; other site 212042001045 G2 box; other site 212042001046 G3 box; other site 212042001047 Switch II region; other site 212042001048 G4 box; other site 212042001049 G5 box; other site 212042001050 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 212042001051 feedback inhibition sensing region; other site 212042001052 homohexameric interface [polypeptide binding]; other site 212042001053 nucleotide binding site [chemical binding]; other site 212042001054 N-acetyl-L-glutamate binding site [chemical binding]; other site 212042001055 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 212042001056 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 212042001057 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 212042001058 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 212042001059 seryl-tRNA synthetase; Provisional; Region: PRK05431 212042001060 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 212042001061 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 212042001062 dimer interface [polypeptide binding]; other site 212042001063 active site 212042001064 motif 1; other site 212042001065 motif 2; other site 212042001066 motif 3; other site 212042001067 RmuC family; Region: RmuC; pfam02646 212042001068 VirB8 protein; Region: VirB8; cl01500 212042001069 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 212042001070 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 212042001071 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 212042001072 SLBB domain; Region: SLBB; pfam10531 212042001073 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 212042001074 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 212042001075 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 212042001076 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 212042001077 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 212042001078 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 212042001079 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 212042001080 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 212042001081 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 212042001082 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 212042001083 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 212042001084 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 212042001085 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 212042001086 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 212042001087 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 212042001088 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 212042001089 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 212042001090 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 212042001091 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 212042001092 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 212042001093 Protein export membrane protein; Region: SecD_SecF; cl14618 212042001094 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 212042001095 NusA N-terminal domain; Region: NusA_N; pfam08529 212042001096 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 212042001097 RNA binding site [nucleotide binding]; other site 212042001098 homodimer interface [polypeptide binding]; other site 212042001099 NusA-like KH domain; Region: KH_5; pfam13184 212042001100 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 212042001101 G-X-X-G motif; other site 212042001102 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 212042001103 translation initiation factor IF-2; Region: IF-2; TIGR00487 212042001104 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 212042001105 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 212042001106 G1 box; other site 212042001107 putative GEF interaction site [polypeptide binding]; other site 212042001108 GTP/Mg2+ binding site [chemical binding]; other site 212042001109 Switch I region; other site 212042001110 G2 box; other site 212042001111 G3 box; other site 212042001112 Switch II region; other site 212042001113 G4 box; other site 212042001114 G5 box; other site 212042001115 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 212042001116 Translation-initiation factor 2; Region: IF-2; pfam11987 212042001117 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 212042001118 Ribosome-binding factor A; Region: RBFA; pfam02033 212042001119 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 212042001120 Integral membrane protein TerC family; Region: TerC; pfam03741 212042001121 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 212042001122 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 212042001123 Walker A motif; other site 212042001124 ATP binding site [chemical binding]; other site 212042001125 Walker B motif; other site 212042001126 arginine finger; other site 212042001127 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 212042001128 Walker A motif; other site 212042001129 ATP binding site [chemical binding]; other site 212042001130 Walker B motif; other site 212042001131 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 212042001132 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 212042001133 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 212042001134 G1 box; other site 212042001135 putative GEF interaction site [polypeptide binding]; other site 212042001136 GTP/Mg2+ binding site [chemical binding]; other site 212042001137 Switch I region; other site 212042001138 G2 box; other site 212042001139 G3 box; other site 212042001140 Switch II region; other site 212042001141 G4 box; other site 212042001142 G5 box; other site 212042001143 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 212042001144 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 212042001145 peptide chain release factor 2; Validated; Region: prfB; PRK00578 212042001146 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 212042001147 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 212042001148 dimer interface [polypeptide binding]; other site 212042001149 ssDNA binding site [nucleotide binding]; other site 212042001150 tetramer (dimer of dimers) interface [polypeptide binding]; other site 212042001151 This domain is found in peptide chain release factors; Region: PCRF; smart00937 212042001152 RF-1 domain; Region: RF-1; pfam00472 212042001153 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 212042001154 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 212042001155 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 212042001156 GatB domain; Region: GatB_Yqey; smart00845 212042001157 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 212042001158 putative catalytic site [active] 212042001159 putative phosphate binding site [ion binding]; other site 212042001160 putative metal binding site [ion binding]; other site 212042001161 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 212042001162 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 212042001163 NAD binding site [chemical binding]; other site 212042001164 homotetramer interface [polypeptide binding]; other site 212042001165 homodimer interface [polypeptide binding]; other site 212042001166 substrate binding site [chemical binding]; other site 212042001167 active site 212042001168 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 212042001169 DnaA N-terminal domain; Region: DnaA_N; pfam11638 212042001170 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 212042001171 Walker A motif; other site 212042001172 ATP binding site [chemical binding]; other site 212042001173 Walker B motif; other site 212042001174 arginine finger; other site 212042001175 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 212042001176 DnaA box-binding interface [nucleotide binding]; other site 212042001177 peptide chain release factor 2; Validated; Region: prfB; PRK00578 212042001178 This domain is found in peptide chain release factors; Region: PCRF; smart00937 212042001179 RF-1 domain; Region: RF-1; pfam00472 212042001180 hypothetical protein; Validated; Region: PRK00110 212042001181 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 212042001182 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 212042001183 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 212042001184 inhibitor-cofactor binding pocket; inhibition site 212042001185 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212042001186 catalytic residue [active] 212042001187 anthranilate synthase component I; Provisional; Region: PRK13567 212042001188 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 212042001189 G4 box; other site 212042001190 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 212042001191 active site 212042001192 intersubunit interactions; other site 212042001193 catalytic residue [active] 212042001194 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; pfam02823 212042001195 gamma subunit interface [polypeptide binding]; other site 212042001196 epsilon subunit interface [polypeptide binding]; other site 212042001197 LBP interface [polypeptide binding]; other site 212042001198 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 212042001199 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 212042001200 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 212042001201 alpha subunit interaction interface [polypeptide binding]; other site 212042001202 Walker A motif; other site 212042001203 ATP binding site [chemical binding]; other site 212042001204 Walker B motif; other site 212042001205 inhibitor binding site; inhibition site 212042001206 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 212042001207 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 212042001208 MgtE intracellular N domain; Region: MgtE_N; smart00924 212042001209 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 212042001210 Divalent cation transporter; Region: MgtE; cl00786 212042001211 identified by similarity to GB:AAS13832.1; match to protein family HMM PF01728; similar to putative ribosomal RNA large subunit methyltransferase J 212042001212 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 212042001213 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 212042001214 dimerization interface 3.5A [polypeptide binding]; other site 212042001215 active site 212042001216 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 212042001217 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 212042001218 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 212042001219 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 212042001220 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 212042001221 S-adenosylmethionine binding site [chemical binding]; other site 212042001222 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 212042001223 putative catalytic site [active] 212042001224 putative phosphate binding site [ion binding]; other site 212042001225 active site 212042001226 metal binding site A [ion binding]; metal-binding site 212042001227 DNA binding site [nucleotide binding] 212042001228 putative AP binding site [nucleotide binding]; other site 212042001229 putative metal binding site B [ion binding]; other site 212042001230 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 212042001231 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 212042001232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 212042001233 Smr domain; Region: Smr; pfam01713 212042001234 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 212042001235 Helix-turn-helix domain; Region: HTH_37; pfam13744 212042001236 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 212042001237 NADH dehydrogenase subunit B; Validated; Region: PRK06411 212042001238 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 212042001239 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 212042001240 Survival protein SurE; Region: SurE; pfam01975 212042001241 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 212042001242 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 212042001243 active site 212042001244 dimer interface [polypeptide binding]; other site 212042001245 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 212042001246 active site 212042001247 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 212042001248 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 212042001249 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 212042001250 HIGH motif; other site 212042001251 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 212042001252 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 212042001253 active site 212042001254 KMSKS motif; other site 212042001255 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 212042001256 tRNA binding surface [nucleotide binding]; other site 212042001257 similar to P44-82 outer membrane protein, truncation 212042001258 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 212042001259 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 212042001260 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 212042001261 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 212042001262 transcription antitermination factor NusB; Region: nusB; TIGR01951 212042001263 putative RNA binding site [nucleotide binding]; other site 212042001264 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 212042001265 homopentamer interface [polypeptide binding]; other site 212042001266 active site 212042001267 membrane protein insertase; Provisional; Region: PRK01318 212042001268 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 212042001269 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 212042001270 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 212042001271 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 212042001272 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 212042001273 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 212042001274 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 212042001275 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 212042001276 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 212042001277 FAD binding pocket [chemical binding]; other site 212042001278 FAD binding motif [chemical binding]; other site 212042001279 phosphate binding motif [ion binding]; other site 212042001280 beta-alpha-beta structure motif; other site 212042001281 NAD binding pocket [chemical binding]; other site 212042001282 Iron coordination center [ion binding]; other site 212042001283 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 212042001284 elongation factor P; Validated; Region: PRK00529 212042001285 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 212042001286 RNA binding site [nucleotide binding]; other site 212042001287 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 212042001288 RNA binding site [nucleotide binding]; other site 212042001289 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 212042001290 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 212042001291 active site 212042001292 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 212042001293 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 212042001294 RNA binding surface [nucleotide binding]; other site 212042001295 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 212042001296 active site 212042001297 response regulator PleD; Reviewed; Region: pleD; PRK09581 212042001298 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 212042001299 active site 212042001300 phosphorylation site [posttranslational modification] 212042001301 intermolecular recognition site; other site 212042001302 dimerization interface [polypeptide binding]; other site 212042001303 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 212042001304 active site 212042001305 phosphorylation site [posttranslational modification] 212042001306 intermolecular recognition site; other site 212042001307 dimerization interface [polypeptide binding]; other site 212042001308 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 212042001309 metal binding site [ion binding]; metal-binding site 212042001310 active site 212042001311 I-site; other site 212042001312 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 212042001313 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 212042001314 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 212042001315 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 212042001316 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 212042001317 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 212042001318 active site 212042001319 HIGH motif; other site 212042001320 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 212042001321 KMSKS motif; other site 212042001322 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 212042001323 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 212042001324 dimer interface [polypeptide binding]; other site 212042001325 putative radical transfer pathway; other site 212042001326 diiron center [ion binding]; other site 212042001327 tyrosyl radical; other site 212042001328 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 212042001329 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 212042001330 catalytic residues [active] 212042001331 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 212042001332 Uncharacterized conserved protein [Function unknown]; Region: COG1565 212042001333 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 212042001334 DNA primase; Validated; Region: dnaG; PRK05667 212042001335 CHC2 zinc finger; Region: zf-CHC2; cl17510 212042001336 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 212042001337 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 212042001338 active site 212042001339 metal binding site [ion binding]; metal-binding site 212042001340 interdomain interaction site; other site 212042001341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212042001342 Walker A/P-loop; other site 212042001343 ATP binding site [chemical binding]; other site 212042001344 Q-loop/lid; other site 212042001345 ABC transporter signature motif; other site 212042001346 Walker B; other site 212042001347 D-loop; other site 212042001348 H-loop/switch region; other site 212042001349 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14610 212042001350 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 212042001351 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 212042001352 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 212042001353 FMN binding site [chemical binding]; other site 212042001354 active site 212042001355 catalytic residues [active] 212042001356 substrate binding site [chemical binding]; other site 212042001357 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 212042001358 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 212042001359 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 212042001360 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212042001361 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 212042001362 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 212042001363 DNA binding residues [nucleotide binding] 212042001364 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 212042001365 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 212042001366 dimer interface [polypeptide binding]; other site 212042001367 phosphorylation site [posttranslational modification] 212042001368 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 212042001369 ATP binding site [chemical binding]; other site 212042001370 Mg2+ binding site [ion binding]; other site 212042001371 G-X-G motif; other site 212042001372 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 212042001373 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 212042001374 active site 212042001375 phosphorylation site [posttranslational modification] 212042001376 intermolecular recognition site; other site 212042001377 dimerization interface [polypeptide binding]; other site 212042001378 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 212042001379 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 212042001380 ThiC-associated domain; Region: ThiC-associated; pfam13667 212042001381 ThiC family; Region: ThiC; cl08031 212042001382 Uncharacterized conserved protein [Function unknown]; Region: COG0062 212042001383 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 212042001384 putative substrate binding site [chemical binding]; other site 212042001385 putative ATP binding site [chemical binding]; other site 212042001386 DNA topoisomerase I; Validated; Region: PRK06599 212042001387 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 212042001388 active site 212042001389 interdomain interaction site; other site 212042001390 putative metal-binding site [ion binding]; other site 212042001391 nucleotide binding site [chemical binding]; other site 212042001392 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 212042001393 domain I; other site 212042001394 DNA binding groove [nucleotide binding] 212042001395 phosphate binding site [ion binding]; other site 212042001396 domain II; other site 212042001397 domain III; other site 212042001398 nucleotide binding site [chemical binding]; other site 212042001399 catalytic site [active] 212042001400 domain IV; other site 212042001401 Uncharacterized C-terminal domain of topoisomerase IA [General function prediction only]; Region: COG1754 212042001402 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 212042001403 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 212042001404 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 212042001405 ThiC-associated domain; Region: ThiC-associated; pfam13667 212042001406 ThiC family; Region: ThiC; pfam01964 212042001407 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 212042001408 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 212042001409 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 212042001410 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 212042001411 active site 212042001412 nucleotide binding site [chemical binding]; other site 212042001413 HIGH motif; other site 212042001414 KMSKS motif; other site 212042001415 SurA N-terminal domain; Region: SurA_N_3; cl07813 212042001416 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 212042001417 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 212042001418 Glycoprotease family; Region: Peptidase_M22; pfam00814 212042001419 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 212042001420 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 212042001421 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 212042001422 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 212042001423 rod shape-determining protein MreC; Provisional; Region: PRK13922 212042001424 rod shape-determining protein MreC; Region: MreC; pfam04085 212042001425 Protein of unknown function (DUF721); Region: DUF721; pfam05258 212042001426 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 212042001427 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 212042001428 S-adenosylmethionine binding site [chemical binding]; other site 212042001429 triosephosphate isomerase; Provisional; Region: PRK14565 212042001430 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 212042001431 substrate binding site [chemical binding]; other site 212042001432 dimer interface [polypeptide binding]; other site 212042001433 catalytic triad [active] 212042001434 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 212042001435 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 212042001436 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 212042001437 UGMP family protein; Validated; Region: PRK09604 212042001438 RDD family; Region: RDD; pfam06271 212042001439 Dihydroneopterin aldolase; Region: FolB; pfam02152 212042001440 active site 212042001441 malate dehydrogenase; Reviewed; Region: PRK06223 212042001442 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 212042001443 NAD(P) binding site [chemical binding]; other site 212042001444 dimer interface [polypeptide binding]; other site 212042001445 tetramer (dimer of dimers) interface [polypeptide binding]; other site 212042001446 substrate binding site [chemical binding]; other site 212042001447 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 212042001448 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 212042001449 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 212042001450 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 212042001451 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 212042001452 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14659 212042001453 prolyl-tRNA synthetase; Provisional; Region: PRK12325 212042001454 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 212042001455 dimer interface [polypeptide binding]; other site 212042001456 motif 1; other site 212042001457 active site 212042001458 motif 2; other site 212042001459 motif 3; other site 212042001460 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 212042001461 anticodon binding site; other site 212042001462 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 212042001463 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 212042001464 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 212042001465 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 212042001466 active site 212042001467 (T/H)XGH motif; other site 212042001468 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 212042001469 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 212042001470 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 212042001471 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 212042001472 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 212042001473 dimer interface [polypeptide binding]; other site 212042001474 decamer (pentamer of dimers) interface [polypeptide binding]; other site 212042001475 catalytic triad [active] 212042001476 peroxidatic and resolving cysteines [active] 212042001477 aspartate aminotransferase; Provisional; Region: PRK05764 212042001478 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 212042001479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212042001480 homodimer interface [polypeptide binding]; other site 212042001481 catalytic residue [active] 212042001482 Surface antigen; Region: Surface_Ag_2; pfam01617 212042001483 Surface antigen; Region: Surface_Ag_2; pfam01617 212042001484 Surface antigen; Region: Surface_Ag_2; pfam01617 212042001485 Surface antigen; Region: Surface_Ag_2; pfam01617 212042001486 Surface antigen; Region: Surface_Ag_2; pfam01617 212042001487 Surface antigen; Region: Surface_Ag_2; pfam01617 212042001488 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 212042001489 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 212042001490 NAD(P) binding site [chemical binding]; other site 212042001491 homotetramer interface [polypeptide binding]; other site 212042001492 homodimer interface [polypeptide binding]; other site 212042001493 active site 212042001494 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 212042001495 Proline dehydrogenase; Region: Pro_dh; pfam01619 212042001496 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 212042001497 Glutamate binding site [chemical binding]; other site 212042001498 NAD binding site [chemical binding]; other site 212042001499 catalytic residues [active] 212042001500 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 212042001501 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 212042001502 Transcriptional regulator; Region: Rrf2; cl17282 212042001503 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 212042001504 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 212042001505 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 212042001506 catalytic residue [active] 212042001507 cysteine desulfurase; Provisional; Region: PRK14012 212042001508 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 212042001509 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 212042001510 catalytic residue [active] 212042001511 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 212042001512 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 212042001513 trimerization site [polypeptide binding]; other site 212042001514 active site 212042001515 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 212042001516 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 212042001517 HSP70 interaction site [polypeptide binding]; other site 212042001518 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 212042001519 Fe-S protein assembly chaperone HscA; Region: HscA; TIGR01991 212042001520 nucleotide binding site [chemical binding]; other site 212042001521 putative NEF/HSP70 interaction site [polypeptide binding]; other site 212042001522 SBD interface [polypeptide binding]; other site 212042001523 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 212042001524 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 212042001525 catalytic loop [active] 212042001526 iron binding site [ion binding]; other site 212042001527 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 212042001528 Putative phage tail protein; Region: Phage-tail_3; pfam13550 212042001529 Class I aldolases; Region: Aldolase_Class_I; cl17187 212042001530 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 212042001531 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 212042001532 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 212042001533 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 212042001534 MraW methylase family; Region: Methyltransf_5; cl17771 212042001535 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 212042001536 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 212042001537 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 212042001538 GTPase CgtA; Reviewed; Region: obgE; PRK12299 212042001539 GTP1/OBG; Region: GTP1_OBG; pfam01018 212042001540 Obg GTPase; Region: Obg; cd01898 212042001541 G1 box; other site 212042001542 GTP/Mg2+ binding site [chemical binding]; other site 212042001543 Switch I region; other site 212042001544 G2 box; other site 212042001545 G3 box; other site 212042001546 Switch II region; other site 212042001547 G4 box; other site 212042001548 enolase; Provisional; Region: eno; PRK00077 212042001549 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 212042001550 dimer interface [polypeptide binding]; other site 212042001551 metal binding site [ion binding]; metal-binding site 212042001552 substrate binding pocket [chemical binding]; other site 212042001553 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 212042001554 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 212042001555 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 212042001556 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 212042001557 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 212042001558 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 212042001559 active site 212042001560 HIGH motif; other site 212042001561 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 212042001562 KMSK motif region; other site 212042001563 tRNA binding surface [nucleotide binding]; other site 212042001564 DALR anticodon binding domain; Region: DALR_1; smart00836 212042001565 anticodon binding site; other site 212042001566 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 212042001567 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 212042001568 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 212042001569 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 212042001570 active site 212042001571 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 212042001572 core domain interface [polypeptide binding]; other site 212042001573 delta subunit interface [polypeptide binding]; other site 212042001574 epsilon subunit interface [polypeptide binding]; other site 212042001575 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 212042001576 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 212042001577 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 212042001578 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 212042001579 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 212042001580 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 212042001581 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 212042001582 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 212042001583 NADH dehydrogenase subunit G; Validated; Region: PRK09130 212042001584 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 212042001585 catalytic loop [active] 212042001586 iron binding site [ion binding]; other site 212042001587 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 212042001588 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 212042001589 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 212042001590 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 212042001591 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 212042001592 Mg2+ binding site [ion binding]; other site 212042001593 G-X-G motif; other site 212042001594 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 212042001595 anchoring element; other site 212042001596 dimer interface [polypeptide binding]; other site 212042001597 ATP binding site [chemical binding]; other site 212042001598 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 212042001599 active site 212042001600 putative metal-binding site [ion binding]; other site 212042001601 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 212042001602 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 212042001603 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 212042001604 active site 212042001605 catalytic site [active] 212042001606 substrate binding site [chemical binding]; other site 212042001607 NADH dehydrogenase subunit E; Validated; Region: PRK07539 212042001608 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 212042001609 putative dimer interface [polypeptide binding]; other site 212042001610 [2Fe-2S] cluster binding site [ion binding]; other site 212042001611 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 212042001612 NADH dehydrogenase subunit D; Validated; Region: PRK06075 212042001613 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 212042001614 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 212042001615 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 212042001616 thiamine monophosphate kinase; Provisional; Region: PRK05731 212042001617 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 212042001618 ATP binding site [chemical binding]; other site 212042001619 dimerization interface [polypeptide binding]; other site 212042001620 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 212042001621 Recombination protein O N terminal; Region: RecO_N; pfam11967 212042001622 Recombination protein O C terminal; Region: RecO_C; pfam02565 212042001623 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 212042001624 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 212042001625 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 212042001626 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 212042001627 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 212042001628 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 212042001629 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 212042001630 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 212042001631 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 212042001632 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 212042001633 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 212042001634 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 212042001635 FAD binding domain; Region: FAD_binding_4; pfam01565 212042001636 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 212042001637 porphobilinogen deaminase; Region: hemC; TIGR00212 212042001638 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 212042001639 domain interfaces; other site 212042001640 active site 212042001641 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 212042001642 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 212042001643 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 212042001644 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 212042001645 Flavoprotein; Region: Flavoprotein; pfam02441 212042001646 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 212042001647 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 212042001648 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 212042001649 Walker A motif; other site 212042001650 ATP binding site [chemical binding]; other site 212042001651 Walker B motif; other site 212042001652 arginine finger; other site 212042001653 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 212042001654 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 212042001655 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 212042001656 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 212042001657 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 212042001658 DNA binding residues [nucleotide binding] 212042001659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 212042001660 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 212042001661 GTP-binding protein LepA; Provisional; Region: PRK05433 212042001662 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 212042001663 G1 box; other site 212042001664 putative GEF interaction site [polypeptide binding]; other site 212042001665 GTP/Mg2+ binding site [chemical binding]; other site 212042001666 Switch I region; other site 212042001667 G2 box; other site 212042001668 G3 box; other site 212042001669 Switch II region; other site 212042001670 G4 box; other site 212042001671 G5 box; other site 212042001672 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 212042001673 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 212042001674 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 212042001675 Methyltransferase domain; Region: Methyltransf_11; pfam08241 212042001676 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 212042001677 polyribonucleotide nucleotidyltransferase; Region: polynuc_phos; TIGR03591 212042001678 RNase E interface [polypeptide binding]; other site 212042001679 trimer interface [polypeptide binding]; other site 212042001680 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 212042001681 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 212042001682 RNase E interface [polypeptide binding]; other site 212042001683 trimer interface [polypeptide binding]; other site 212042001684 active site 212042001685 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 212042001686 putative nucleic acid binding region [nucleotide binding]; other site 212042001687 G-X-X-G motif; other site 212042001688 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 212042001689 RNA binding site [nucleotide binding]; other site 212042001690 domain interface; other site 212042001691 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 212042001692 16S/18S rRNA binding site [nucleotide binding]; other site 212042001693 S13e-L30e interaction site [polypeptide binding]; other site 212042001694 25S rRNA binding site [nucleotide binding]; other site 212042001695 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 212042001696 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 212042001697 RNA binding site [nucleotide binding]; other site 212042001698 active site 212042001699 rod shape-determining protein MreB; Provisional; Region: PRK13927 212042001700 MreB and similar proteins; Region: MreB_like; cd10225 212042001701 nucleotide binding site [chemical binding]; other site 212042001702 Mg binding site [ion binding]; other site 212042001703 putative protofilament interaction site [polypeptide binding]; other site 212042001704 RodZ interaction site [polypeptide binding]; other site 212042001705 Stringent starvation protein B; Region: SspB; pfam04386 212042001706 dephospho-CoA kinase; Region: TIGR00152 212042001707 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 212042001708 CoA-binding site [chemical binding]; other site 212042001709 ATP-binding [chemical binding]; other site 212042001710 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 212042001711 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 212042001712 DNA polymerase III subunit delta'; Validated; Region: PRK08485 212042001713 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 212042001714 IHF dimer interface [polypeptide binding]; other site 212042001715 IHF - DNA interface [nucleotide binding]; other site 212042001716 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 212042001717 active site 212042001718 hydrophilic channel; other site 212042001719 dimerization interface [polypeptide binding]; other site 212042001720 catalytic residues [active] 212042001721 active site lid [active] 212042001722 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 212042001723 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 212042001724 active site 212042001725 (T/H)XGH motif; other site 212042001726 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 212042001727 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 212042001728 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 212042001729 catalytic triad [active] 212042001730 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 212042001731 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 212042001732 HIGH motif; other site 212042001733 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 212042001734 active site 212042001735 KMSKS motif; other site 212042001736 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 212042001737 tRNA binding surface [nucleotide binding]; other site 212042001738 anticodon binding site; other site 212042001739 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 212042001740 4Fe-4S binding domain; Region: Fer4; cl02805 212042001741 4Fe-4S binding domain; Region: Fer4; pfam00037 212042001742 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 212042001743 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 212042001744 Catalytic site [active] 212042001745 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 212042001746 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 212042001747 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 212042001748 core domain interface [polypeptide binding]; other site 212042001749 epsilon subunit interface [polypeptide binding]; other site 212042001750 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 212042001751 active site 212042001752 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 212042001753 FtsJ-like methyltransferase; Region: FtsJ; cl17430 212042001754 metabolite-proton symporter; Region: 2A0106; TIGR00883 212042001755 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 212042001756 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 212042001757 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 212042001758 dimer interface [polypeptide binding]; other site 212042001759 allosteric magnesium binding site [ion binding]; other site 212042001760 active site 212042001761 aspartate-rich active site metal binding site; other site 212042001762 Schiff base residues; other site 212042001763 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 212042001764 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 212042001765 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 212042001766 homodimer interface [polypeptide binding]; other site 212042001767 NAD binding pocket [chemical binding]; other site 212042001768 ATP binding pocket [chemical binding]; other site 212042001769 Mg binding site [ion binding]; other site 212042001770 active-site loop [active] 212042001771 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 212042001772 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 212042001773 MutS domain I; Region: MutS_I; pfam01624 212042001774 MutS domain II; Region: MutS_II; pfam05188 212042001775 MutS domain III; Region: MutS_III; pfam05192 212042001776 MutS domain V; Region: MutS_V; pfam00488 212042001777 Walker A/P-loop; other site 212042001778 ATP binding site [chemical binding]; other site 212042001779 Q-loop/lid; other site 212042001780 ABC transporter signature motif; other site 212042001781 Walker B; other site 212042001782 D-loop; other site 212042001783 H-loop/switch region; other site 212042001784 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 212042001785 nucleotide binding site/active site [active] 212042001786 HIT family signature motif; other site 212042001787 catalytic residue [active] 212042001788 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 212042001789 Phage capsid family; Region: Phage_capsid; pfam05065 212042001790 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 212042001791 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 212042001792 TPP-binding site [chemical binding]; other site 212042001793 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 212042001794 PYR/PP interface [polypeptide binding]; other site 212042001795 dimer interface [polypeptide binding]; other site 212042001796 TPP binding site [chemical binding]; other site 212042001797 adenylosuccinate lyase; Provisional; Region: PRK07492 212042001798 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 212042001799 tetramer interface [polypeptide binding]; other site 212042001800 active site 212042001801 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 212042001802 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 212042001803 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 212042001804 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 212042001805 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 212042001806 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 212042001807 FeS/SAM binding site; other site 212042001808 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 212042001809 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 212042001810 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 212042001811 GIY-YIG motif/motif A; other site 212042001812 active site 212042001813 catalytic site [active] 212042001814 putative DNA binding site [nucleotide binding]; other site 212042001815 metal binding site [ion binding]; metal-binding site 212042001816 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 212042001817 heat shock protein 90; Provisional; Region: PRK05218 212042001818 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 212042001819 ATP binding site [chemical binding]; other site 212042001820 Mg2+ binding site [ion binding]; other site 212042001821 G-X-G motif; other site 212042001822 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 212042001823 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; cl17904 212042001824 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 212042001825 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 212042001826 minor groove reading motif; other site 212042001827 helix-hairpin-helix signature motif; other site 212042001828 substrate binding pocket [chemical binding]; other site 212042001829 active site 212042001830 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 212042001831 DNA gyrase subunit A; Validated; Region: PRK05560 212042001832 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 212042001833 CAP-like domain; other site 212042001834 active site 212042001835 primary dimer interface [polypeptide binding]; other site 212042001836 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 212042001837 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 212042001838 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 212042001839 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 212042001840 similar to P44-57 outer membrane protein, silent 212042001841 similar to P44-73 outer membrane protein, silent 212042001842 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 212042001843 Part of AAA domain; Region: AAA_19; pfam13245 212042001844 Family description; Region: UvrD_C_2; pfam13538 212042001845 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 212042001846 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 212042001847 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 212042001848 Ligand Binding Site [chemical binding]; other site 212042001849 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 212042001850 diiron binding motif [ion binding]; other site 212042001851 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 212042001852 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 212042001853 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 212042001854 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 212042001855 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 212042001856 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 212042001857 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 212042001858 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 212042001859 acyl carrier protein; Provisional; Region: acpP; PRK00982 212042001860 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 212042001861 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 212042001862 dimer interface [polypeptide binding]; other site 212042001863 active site 212042001864 DNA protecting protein DprA; Region: dprA; TIGR00732 212042001865 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 212042001866 similar to P44-34 outer membrane protein, silent 212042001867 similar to P44-85 outer membrane protein, truncation 212042001868 similar to P44-86 outer membrane protein, truncation 212042001869 Surface antigen; Region: Surface_Ag_2; pfam01617 212042001870 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 212042001871 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 212042001872 ATP binding site [chemical binding]; other site 212042001873 Mg2+ binding site [ion binding]; other site 212042001874 G-X-G motif; other site 212042001875 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 212042001876 ATP binding site [chemical binding]; other site 212042001877 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 212042001878 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 212042001879 TolA protein; Region: tolA_full; TIGR02794 212042001880 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 212042001881 dimer interface [polypeptide binding]; other site 212042001882 phosphorylation site [posttranslational modification] 212042001883 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 212042001884 ATP binding site [chemical binding]; other site 212042001885 Mg2+ binding site [ion binding]; other site 212042001886 G-X-G motif; other site 212042001887 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 212042001888 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 212042001889 inhibitor-cofactor binding pocket; inhibition site 212042001890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212042001891 catalytic residue [active] 212042001892 similar to P44 outer membrane protein, C-terminal fragment 212042001893 similar to P44 outer membrane protein, C-terminal fragment 212042001894 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 212042001895 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 212042001896 YGGT family; Region: YGGT; pfam02325 212042001897 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 212042001898 Domain of unknown function DUF21; Region: DUF21; pfam01595 212042001899 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 212042001900 Transporter associated domain; Region: CorC_HlyC; smart01091 212042001901 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 212042001902 thiamine phosphate binding site [chemical binding]; other site 212042001903 active site 212042001904 pyrophosphate binding site [ion binding]; other site 212042001905 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 212042001906 hypothetical protein; Validated; Region: PRK01415 212042001907 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 212042001908 active site residue [active] 212042001909 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 212042001910 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 212042001911 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 212042001912 putative active site [active] 212042001913 substrate binding site [chemical binding]; other site 212042001914 putative cosubstrate binding site; other site 212042001915 catalytic site [active] 212042001916 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 212042001917 substrate binding site [chemical binding]; other site 212042001918 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 212042001919 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 212042001920 Walker A motif; other site 212042001921 ATP binding site [chemical binding]; other site 212042001922 Walker B motif; other site 212042001923 arginine finger; other site 212042001924 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 212042001925 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 212042001926 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 212042001927 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 212042001928 Walker A motif; other site 212042001929 ATP binding site [chemical binding]; other site 212042001930 Walker B motif; other site 212042001931 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 212042001932 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 212042001933 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 212042001934 oligomer interface [polypeptide binding]; other site 212042001935 active site residues [active] 212042001936 trigger factor; Region: tig; TIGR00115 212042001937 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 212042001938 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 212042001939 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 212042001940 tetramer interfaces [polypeptide binding]; other site 212042001941 binuclear metal-binding site [ion binding]; other site 212042001942 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 212042001943 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 212042001944 Coenzyme A binding pocket [chemical binding]; other site 212042001945 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 212042001946 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 212042001947 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 212042001948 catalytic residue [active] 212042001949 similar to P44 outer membrane protein, C-terminal fragment 212042001950 similar to P44-44 outer membrane protein, silent 212042001951 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 212042001952 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 212042001953 metal binding site [ion binding]; metal-binding site 212042001954 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 212042001955 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212042001956 Walker A/P-loop; other site 212042001957 ATP binding site [chemical binding]; other site 212042001958 Q-loop/lid; other site 212042001959 ABC transporter signature motif; other site 212042001960 Walker B; other site 212042001961 D-loop; other site 212042001962 H-loop/switch region; other site 212042001963 ABC1 family; Region: ABC1; cl17513 212042001964 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 212042001965 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 212042001966 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 212042001967 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 212042001968 Walker A/P-loop; other site 212042001969 ATP binding site [chemical binding]; other site 212042001970 Q-loop/lid; other site 212042001971 ABC transporter signature motif; other site 212042001972 Walker B; other site 212042001973 D-loop; other site 212042001974 H-loop/switch region; other site 212042001975 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 212042001976 recombination protein RecR; Reviewed; Region: recR; PRK00076 212042001977 RecR protein; Region: RecR; pfam02132 212042001978 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 212042001979 putative active site [active] 212042001980 putative metal-binding site [ion binding]; other site 212042001981 tetramer interface [polypeptide binding]; other site 212042001982 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 212042001983 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 212042001984 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 212042001985 RNA binding surface [nucleotide binding]; other site 212042001986 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 212042001987 dimer interface [polypeptide binding]; other site 212042001988 substrate binding site [chemical binding]; other site 212042001989 ATP binding site [chemical binding]; other site 212042001990 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 212042001991 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 212042001992 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 212042001993 Domain of unknown function DUF20; Region: UPF0118; pfam01594 212042001994 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 212042001995 putative SdhC subunit interface [polypeptide binding]; other site 212042001996 putative proximal heme binding site [chemical binding]; other site 212042001997 putative Iron-sulfur protein interface [polypeptide binding]; other site 212042001998 putative proximal quinone binding site; other site 212042001999 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 212042002000 Iron-sulfur protein interface; other site 212042002001 proximal quinone binding site [chemical binding]; other site 212042002002 SdhD (CybS) interface [polypeptide binding]; other site 212042002003 proximal heme binding site [chemical binding]; other site 212042002004 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 212042002005 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 212042002006 putative active site [active] 212042002007 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 212042002008 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 212042002009 putative active site [active] 212042002010 putative PHP Thumb interface [polypeptide binding]; other site 212042002011 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 212042002012 generic binding surface I; other site 212042002013 generic binding surface II; other site 212042002014 BolA-like protein; Region: BolA; pfam01722 212042002015 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 212042002016 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 212042002017 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 212042002018 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 212042002019 putative hydrolase; Provisional; Region: PRK11460 212042002020 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 212042002021 active site 212042002022 catalytic residues [active] 212042002023 metal binding site [ion binding]; metal-binding site 212042002024 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 212042002025 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 212042002026 quinone interaction residues [chemical binding]; other site 212042002027 active site 212042002028 catalytic residues [active] 212042002029 FMN binding site [chemical binding]; other site 212042002030 substrate binding site [chemical binding]; other site 212042002031 pantothenate kinase; Reviewed; Region: PRK13318 212042002032 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 212042002033 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 212042002034 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 212042002035 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 212042002036 catalytic residue [active] 212042002037 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002038 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002039 similar to P44-62 outer membrane protein, silent 212042002040 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 212042002041 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 212042002042 RNA/DNA hybrid binding site [nucleotide binding]; other site 212042002043 active site 212042002044 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 212042002045 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 212042002046 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 212042002047 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 212042002048 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 212042002049 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 212042002050 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 212042002051 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 212042002052 DNA binding site [nucleotide binding] 212042002053 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 212042002054 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 212042002055 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 212042002056 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 212042002057 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 212042002058 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 212042002059 RPB3 interaction site [polypeptide binding]; other site 212042002060 RPB1 interaction site [polypeptide binding]; other site 212042002061 RPB11 interaction site [polypeptide binding]; other site 212042002062 RPB10 interaction site [polypeptide binding]; other site 212042002063 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 212042002064 peripheral dimer interface [polypeptide binding]; other site 212042002065 core dimer interface [polypeptide binding]; other site 212042002066 L10 interface [polypeptide binding]; other site 212042002067 L11 interface [polypeptide binding]; other site 212042002068 putative EF-Tu interaction site [polypeptide binding]; other site 212042002069 putative EF-G interaction site [polypeptide binding]; other site 212042002070 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 212042002071 23S rRNA interface [nucleotide binding]; other site 212042002072 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 212042002073 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 212042002074 mRNA/rRNA interface [nucleotide binding]; other site 212042002075 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 212042002076 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 212042002077 23S rRNA interface [nucleotide binding]; other site 212042002078 L7/L12 interface [polypeptide binding]; other site 212042002079 putative thiostrepton binding site; other site 212042002080 L25 interface [polypeptide binding]; other site 212042002081 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 212042002082 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 212042002083 putative homodimer interface [polypeptide binding]; other site 212042002084 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 212042002085 heterodimer interface [polypeptide binding]; other site 212042002086 homodimer interface [polypeptide binding]; other site 212042002087 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 212042002088 elongation factor Tu; Reviewed; Region: PRK00049 212042002089 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 212042002090 G1 box; other site 212042002091 GEF interaction site [polypeptide binding]; other site 212042002092 GTP/Mg2+ binding site [chemical binding]; other site 212042002093 Switch I region; other site 212042002094 G2 box; other site 212042002095 G3 box; other site 212042002096 Switch II region; other site 212042002097 G4 box; other site 212042002098 G5 box; other site 212042002099 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 212042002100 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 212042002101 Antibiotic Binding Site [chemical binding]; other site 212042002102 elongation factor G; Reviewed; Region: PRK00007 212042002103 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 212042002104 G1 box; other site 212042002105 putative GEF interaction site [polypeptide binding]; other site 212042002106 GTP/Mg2+ binding site [chemical binding]; other site 212042002107 Switch I region; other site 212042002108 G2 box; other site 212042002109 G3 box; other site 212042002110 Switch II region; other site 212042002111 G4 box; other site 212042002112 G5 box; other site 212042002113 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 212042002114 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 212042002115 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 212042002116 30S ribosomal protein S7; Validated; Region: PRK05302 212042002117 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 212042002118 S17 interaction site [polypeptide binding]; other site 212042002119 S8 interaction site; other site 212042002120 16S rRNA interaction site [nucleotide binding]; other site 212042002121 streptomycin interaction site [chemical binding]; other site 212042002122 23S rRNA interaction site [nucleotide binding]; other site 212042002123 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 212042002124 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 212042002125 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 212042002126 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 212042002127 translocation protein TolB; Provisional; Region: tolB; PRK05137 212042002128 TolB amino-terminal domain; Region: TolB_N; pfam04052 212042002129 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 212042002130 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 212042002131 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 212042002132 COQ9; Region: COQ9; pfam08511 212042002133 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 212042002134 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 212042002135 HlyD family secretion protein; Region: HlyD_3; pfam13437 212042002136 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 212042002137 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 212042002138 dimer interface [polypeptide binding]; other site 212042002139 conserved gate region; other site 212042002140 putative PBP binding loops; other site 212042002141 ABC-ATPase subunit interface; other site 212042002142 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 212042002143 dimer interface [polypeptide binding]; other site 212042002144 conserved gate region; other site 212042002145 putative PBP binding loops; other site 212042002146 ABC-ATPase subunit interface; other site 212042002147 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 212042002148 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 212042002149 FMN binding site [chemical binding]; other site 212042002150 substrate binding site [chemical binding]; other site 212042002151 putative catalytic residue [active] 212042002152 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 212042002153 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 212042002154 Cu(I) binding site [ion binding]; other site 212042002155 PBP superfamily domain; Region: PBP_like_2; cl17296 212042002156 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 212042002157 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 212042002158 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 212042002159 CoA-ligase; Region: Ligase_CoA; pfam00549 212042002160 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 212042002161 CoA binding domain; Region: CoA_binding; pfam02629 212042002162 CoA-ligase; Region: Ligase_CoA; pfam00549 212042002163 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 212042002164 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 212042002165 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 212042002166 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 212042002167 motif 1; other site 212042002168 active site 212042002169 motif 2; other site 212042002170 motif 3; other site 212042002171 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 212042002172 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 212042002173 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 212042002174 dimer interface [polypeptide binding]; other site 212042002175 conserved gate region; other site 212042002176 putative PBP binding loops; other site 212042002177 ABC-ATPase subunit interface; other site 212042002178 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 212042002179 putative hydrolase; Provisional; Region: PRK02113 212042002180 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 212042002181 similar to P44-38 outer membrane protein, silent 212042002182 similar to P44-42 outer membrane protein, silent 212042002183 similar to P44-74 outer membrane protein, silent 212042002184 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 212042002185 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 212042002186 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 212042002187 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 212042002188 transcription termination factor Rho; Provisional; Region: rho; PRK09376 212042002189 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 212042002190 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 212042002191 RNA binding site [nucleotide binding]; other site 212042002192 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 212042002193 multimer interface [polypeptide binding]; other site 212042002194 Walker A motif; other site 212042002195 ATP binding site [chemical binding]; other site 212042002196 Walker B motif; other site 212042002197 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 212042002198 active site 212042002199 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 212042002200 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 212042002201 Walker A motif; other site 212042002202 ATP binding site [chemical binding]; other site 212042002203 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 212042002204 Walker B motif; other site 212042002205 arginine finger; other site 212042002206 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 212042002207 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 212042002208 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 212042002209 S-adenosylmethionine binding site [chemical binding]; other site 212042002210 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002211 similar to P44-41 outer membrane protein, silent 212042002212 similar to P44-56 outer membrane protein, silent 212042002213 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 212042002214 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 212042002215 active site 212042002216 HIGH motif; other site 212042002217 KMSKS motif; other site 212042002218 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 212042002219 tRNA binding surface [nucleotide binding]; other site 212042002220 anticodon binding site; other site 212042002221 similar to P44-50 outer membrane protein, silent 212042002222 identified by match to protein family HMM PF01617; similar to P44-28 outer membrane protein, silent 212042002223 similar to P44-52 outer membrane protein, silent 212042002224 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 212042002225 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 212042002226 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 212042002227 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 212042002228 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 212042002229 Subunit I/III interface [polypeptide binding]; other site 212042002230 D-pathway; other site 212042002231 Subunit I/VIIc interface [polypeptide binding]; other site 212042002232 Subunit I/IV interface [polypeptide binding]; other site 212042002233 Subunit I/II interface [polypeptide binding]; other site 212042002234 Low-spin heme (heme a) binding site [chemical binding]; other site 212042002235 Subunit I/VIIa interface [polypeptide binding]; other site 212042002236 Subunit I/VIa interface [polypeptide binding]; other site 212042002237 Dimer interface; other site 212042002238 Putative water exit pathway; other site 212042002239 Binuclear center (heme a3/CuB) [ion binding]; other site 212042002240 K-pathway; other site 212042002241 Subunit I/Vb interface [polypeptide binding]; other site 212042002242 Putative proton exit pathway; other site 212042002243 Subunit I/VIb interface; other site 212042002244 Subunit I/VIc interface [polypeptide binding]; other site 212042002245 Electron transfer pathway; other site 212042002246 Subunit I/VIIIb interface [polypeptide binding]; other site 212042002247 Subunit I/VIIb interface [polypeptide binding]; other site 212042002248 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 212042002249 UbiA prenyltransferase family; Region: UbiA; pfam01040 212042002250 Outer membrane lipoprotein; Region: YfiO; pfam13525 212042002251 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 212042002252 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 212042002253 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 212042002254 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 212042002255 Preprotein translocase subunit; Region: YajC; pfam02699 212042002256 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 212042002257 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 212042002258 tRNA threonylcarbamoyl adenosine modification protein YgjD; Region: T6A_YgjD; TIGR03723 212042002259 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 212042002260 DNA polymerase III subunit beta; Validated; Region: PRK05643 212042002261 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 212042002262 putative DNA binding surface [nucleotide binding]; other site 212042002263 dimer interface [polypeptide binding]; other site 212042002264 beta-clamp/clamp loader binding surface; other site 212042002265 beta-clamp/translesion DNA polymerase binding surface; other site 212042002266 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 212042002267 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 212042002268 catalytic site [active] 212042002269 putative active site [active] 212042002270 putative substrate binding site [chemical binding]; other site 212042002271 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 212042002272 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 212042002273 active site 212042002274 phosphorylation site [posttranslational modification] 212042002275 intermolecular recognition site; other site 212042002276 dimerization interface [polypeptide binding]; other site 212042002277 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 212042002278 DNA binding site [nucleotide binding] 212042002279 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 212042002280 non-specific DNA binding site [nucleotide binding]; other site 212042002281 salt bridge; other site 212042002282 sequence-specific DNA binding site [nucleotide binding]; other site 212042002283 Predicted transcriptional regulator [Transcription]; Region: COG2932 212042002284 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 212042002285 Catalytic site [active] 212042002286 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 212042002287 dimer interface [polypeptide binding]; other site 212042002288 substrate binding site [chemical binding]; other site 212042002289 metal binding sites [ion binding]; metal-binding site 212042002290 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 212042002291 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 212042002292 23S rRNA interface [nucleotide binding]; other site 212042002293 L3 interface [polypeptide binding]; other site 212042002294 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 212042002295 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 212042002296 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 212042002297 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 212042002298 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212042002299 active site 212042002300 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 212042002301 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002302 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002303 similar to P44 outer membrane protein, C-terminal fragment 212042002304 aconitate hydratase; Validated; Region: PRK09277 212042002305 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 212042002306 substrate binding site [chemical binding]; other site 212042002307 ligand binding site [chemical binding]; other site 212042002308 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 212042002309 substrate binding site [chemical binding]; other site 212042002310 identified by match to protein family HMM PF01617; similar to P44-7b outer membrane protein, silent 212042002311 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 212042002312 ATP-grasp domain; Region: ATP-grasp; pfam02222 212042002313 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 212042002314 similar to P44-6 outer membrane protein, silent 212042002315 similar to P44-75 outer membrane protein, silent 212042002316 similar to P44-3 outer membrane protein, silent 212042002317 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002318 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002319 similar to P44-76 outer membrane protein, silent 212042002320 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 212042002321 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 212042002322 TrbC/VIRB2 family; Region: TrbC; pfam04956 212042002323 TrbC/VIRB2 family; Region: TrbC; pfam04956 212042002324 TrbC/VIRB2 family; Region: TrbC; pfam04956 212042002325 TrbC/VIRB2 family; Region: TrbC; pfam04956 212042002326 TrbC/VIRB2 family; Region: TrbC; pfam04956 212042002327 TrbC/VIRB2 family; Region: TrbC; pfam04956 212042002328 TrbC/VIRB2 family; Region: TrbC; pfam04956 212042002329 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 212042002330 HflK protein; Region: hflK; TIGR01933 212042002331 HflC protein; Region: hflC; TIGR01932 212042002332 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 212042002333 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 212042002334 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 212042002335 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 212042002336 protein binding site [polypeptide binding]; other site 212042002337 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 212042002338 protein binding site [polypeptide binding]; other site 212042002339 ribonuclease III; Reviewed; Region: rnc; PRK00102 212042002340 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 212042002341 dimerization interface [polypeptide binding]; other site 212042002342 active site 212042002343 metal binding site [ion binding]; metal-binding site 212042002344 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 212042002345 dsRNA binding site [nucleotide binding]; other site 212042002346 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 212042002347 similar to P44-47 outer membrane protein, silent 212042002348 identified by similarity to GB:AAL86382.1; similar to P44-4 outer membrane protein, silent 212042002349 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002350 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002351 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 212042002352 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 212042002353 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 212042002354 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 212042002355 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 212042002356 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 212042002357 lipoprotein signal peptidase; Provisional; Region: PRK14775 212042002358 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 212042002359 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 212042002360 active site 212042002361 Riboflavin kinase; Region: Flavokinase; pfam01687 212042002362 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 212042002363 GSH binding site [chemical binding]; other site 212042002364 catalytic residues [active] 212042002365 identified by match to protein family HMM PF01617; similar to P44-53b outer membrane protein, silent 212042002366 cell division protein FtsA; Region: ftsA; TIGR01174 212042002367 Cell division protein FtsA; Region: FtsA; smart00842 212042002368 Cell division protein FtsA; Region: FtsA; pfam14450 212042002369 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 212042002370 DHH family; Region: DHH; pfam01368 212042002371 DHHA1 domain; Region: DHHA1; pfam02272 212042002372 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 212042002373 isocitrate dehydrogenase; Region: ICDH_alpha; TIGR02924 212042002374 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002375 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002376 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002377 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002378 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 212042002379 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 212042002380 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 212042002381 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 212042002382 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 212042002383 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 212042002384 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 212042002385 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212042002386 active site 212042002387 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 212042002388 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 212042002389 ATP binding site [chemical binding]; other site 212042002390 substrate interface [chemical binding]; other site 212042002391 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 212042002392 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002393 similar to P44-54 outer membrane protein, silent 212042002394 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 212042002395 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 212042002396 ATP binding site [chemical binding]; other site 212042002397 putative Mg++ binding site [ion binding]; other site 212042002398 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 212042002399 SEC-C motif; Region: SEC-C; pfam02810 212042002400 FtsH Extracellular; Region: FtsH_ext; pfam06480 212042002401 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 212042002402 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 212042002403 Walker A motif; other site 212042002404 ATP binding site [chemical binding]; other site 212042002405 Walker B motif; other site 212042002406 arginine finger; other site 212042002407 Peptidase family M41; Region: Peptidase_M41; pfam01434 212042002408 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 212042002409 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 212042002410 Ligand Binding Site [chemical binding]; other site 212042002411 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 212042002412 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 212042002413 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 212042002414 cell division protein FtsA; Region: ftsA; TIGR01174 212042002415 Cell division protein FtsA; Region: FtsA; smart00842 212042002416 Cell division protein FtsA; Region: FtsA; pfam14450 212042002417 similar to P44-43 outer membrane protein 212042002418 similar to P44 outer membrane protein, C-terminal fragment 212042002419 similar to P44-40 outer membrane protein, silent 212042002420 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 212042002421 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 212042002422 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 212042002423 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 212042002424 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 212042002425 active site 212042002426 metal binding site [ion binding]; metal-binding site 212042002427 similar to P44-18 outer membrane protein, silent 212042002428 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002429 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002430 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 212042002431 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 212042002432 trimer interface [polypeptide binding]; other site 212042002433 putative metal binding site [ion binding]; other site 212042002434 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 212042002435 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 212042002436 E3 interaction surface; other site 212042002437 lipoyl attachment site [posttranslational modification]; other site 212042002438 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 212042002439 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 212042002440 active site 212042002441 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 212042002442 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 212042002443 S-adenosylmethionine binding site [chemical binding]; other site 212042002444 similar to P44-77 outer membrane protein, silent 212042002445 similar to P44-34b outer membrane protein, silent 212042002446 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 212042002447 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 212042002448 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 212042002449 Putative proton exit pathway; other site 212042002450 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 212042002451 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 212042002452 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 212042002453 purine monophosphate binding site [chemical binding]; other site 212042002454 dimer interface [polypeptide binding]; other site 212042002455 putative catalytic residues [active] 212042002456 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 212042002457 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 212042002458 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 212042002459 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 212042002460 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 212042002461 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 212042002462 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 212042002463 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 212042002464 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 212042002465 Surface antigen; Region: Bac_surface_Ag; pfam01103 212042002466 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 212042002467 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 212042002468 active site 212042002469 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 212042002470 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 212042002471 putative substrate binding region [chemical binding]; other site 212042002472 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 212042002473 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 212042002474 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 212042002475 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 212042002476 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 212042002477 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 212042002478 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002479 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002480 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 212042002481 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 212042002482 active site 212042002483 NTP binding site [chemical binding]; other site 212042002484 metal binding triad [ion binding]; metal-binding site 212042002485 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 212042002486 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 212042002487 active site 212042002488 multimer interface [polypeptide binding]; other site 212042002489 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 212042002490 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 212042002491 non-specific DNA binding site [nucleotide binding]; other site 212042002492 salt bridge; other site 212042002493 sequence-specific DNA binding site [nucleotide binding]; other site 212042002494 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002495 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002496 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002497 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002498 recA bacterial DNA recombination protein; Region: RecA; cl17211 212042002499 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 212042002500 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 212042002501 active site 212042002502 HIGH motif; other site 212042002503 nucleotide binding site [chemical binding]; other site 212042002504 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 212042002505 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 212042002506 active site 212042002507 KMSKS motif; other site 212042002508 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 212042002509 tRNA binding surface [nucleotide binding]; other site 212042002510 anticodon binding site; other site 212042002511 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 212042002512 similar to P44-15 outer membrane protein, silent 212042002513 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 212042002514 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 212042002515 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 212042002516 P loop; other site 212042002517 GTP binding site [chemical binding]; other site 212042002518 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 212042002519 AAA domain; Region: AAA_26; pfam13500 212042002520 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002521 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002522 similar to P44 outer membrane protein, C-terminal fragment 212042002523 Glutamate-cysteine ligase; Region: GshA; pfam08886 212042002524 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 212042002525 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 212042002526 Citrate synthase; Region: Citrate_synt; pfam00285 212042002527 oxalacetate binding site [chemical binding]; other site 212042002528 citrylCoA binding site [chemical binding]; other site 212042002529 coenzyme A binding site [chemical binding]; other site 212042002530 catalytic triad [active] 212042002531 GMP synthase; Reviewed; Region: guaA; PRK00074 212042002532 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 212042002533 AMP/PPi binding site [chemical binding]; other site 212042002534 candidate oxyanion hole; other site 212042002535 catalytic triad [active] 212042002536 potential glutamine specificity residues [chemical binding]; other site 212042002537 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 212042002538 ATP Binding subdomain [chemical binding]; other site 212042002539 Ligand Binding sites [chemical binding]; other site 212042002540 Dimerization subdomain; other site 212042002541 similar to P44-13 outer membrane protein, silent 212042002542 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002543 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002544 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002545 alternate gene name:major outer membrane protein C-17.Infect Immun. 1998 Aug;66(8):3711-8.; similar to P44-33 outer membrane protein, silent 212042002546 identified by match to protein family HMM PF01617; similar to P44-49 outer membrane protein, silent 212042002547 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 212042002548 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 212042002549 substrate-cofactor binding pocket; other site 212042002550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 212042002551 catalytic residue [active] 212042002552 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 212042002553 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 212042002554 active site 212042002555 HIGH motif; other site 212042002556 dimer interface [polypeptide binding]; other site 212042002557 KMSKS motif; other site 212042002558 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 212042002559 RNA binding surface [nucleotide binding]; other site 212042002560 glutamine synthetase, type I; Region: GlnA; TIGR00653 212042002561 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 212042002562 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 212042002563 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 212042002564 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 212042002565 substrate binding pocket [chemical binding]; other site 212042002566 chain length determination region; other site 212042002567 substrate-Mg2+ binding site; other site 212042002568 catalytic residues [active] 212042002569 aspartate-rich region 1; other site 212042002570 active site lid residues [active] 212042002571 aspartate-rich region 2; other site 212042002572 similar to P44-27 outer membrane protein, silent 212042002573 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002574 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002575 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 212042002576 similar to P44-39 outer membrane protein, silent 212042002577 identified by match to protein family HMM PF01617; similar to P44-10 outer membrane protein, silent 212042002578 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002579 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002580 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 212042002581 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 212042002582 E3 interaction surface; other site 212042002583 lipoyl attachment site [posttranslational modification]; other site 212042002584 e3 binding domain; Region: E3_binding; pfam02817 212042002585 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 212042002586 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 212042002587 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 212042002588 putative active site; other site 212042002589 catalytic residue [active] 212042002590 similar to P44-46 outer membrane protein, silent 212042002591 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 212042002592 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 212042002593 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 212042002594 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 212042002595 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 212042002596 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 212042002597 active site 212042002598 dimer interface [polypeptide binding]; other site 212042002599 motif 1; other site 212042002600 motif 2; other site 212042002601 motif 3; other site 212042002602 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 212042002603 anticodon binding site; other site 212042002604 Competence-damaged protein; Region: CinA; pfam02464 212042002605 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 212042002606 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 212042002607 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14592 212042002608 RimM N-terminal domain; Region: RimM; pfam01782 212042002609 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002610 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002611 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 212042002612 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 212042002613 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 212042002614 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002615 identified by match to protein family HMM PF01617; similar to P44-25 outer membrane protein, silent 212042002616 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002617 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002618 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 212042002619 homotrimer interaction site [polypeptide binding]; other site 212042002620 zinc binding site [ion binding]; other site 212042002621 CDP-binding sites; other site 212042002622 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 212042002623 substrate binding site; other site 212042002624 dimer interface; other site 212042002625 AIR carboxylase; Region: AIRC; pfam00731 212042002626 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 212042002627 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 212042002628 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 212042002629 IHF - DNA interface [nucleotide binding]; other site 212042002630 IHF dimer interface [polypeptide binding]; other site 212042002631 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 212042002632 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 212042002633 DNA binding residues [nucleotide binding] 212042002634 similar to P44 outer membrane protein, C-terminal fragment 212042002635 GTP-binding protein YchF; Reviewed; Region: PRK09601 212042002636 YchF GTPase; Region: YchF; cd01900 212042002637 G1 box; other site 212042002638 GTP/Mg2+ binding site [chemical binding]; other site 212042002639 Switch I region; other site 212042002640 G2 box; other site 212042002641 Switch II region; other site 212042002642 G3 box; other site 212042002643 G4 box; other site 212042002644 G5 box; other site 212042002645 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 212042002646 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002647 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002648 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 212042002649 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 212042002650 trmE is a tRNA modification GTPase; Region: trmE; cd04164 212042002651 G1 box; other site 212042002652 GTP/Mg2+ binding site [chemical binding]; other site 212042002653 Switch I region; other site 212042002654 G2 box; other site 212042002655 Switch II region; other site 212042002656 G3 box; other site 212042002657 G4 box; other site 212042002658 G5 box; other site 212042002659 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 212042002660 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 212042002661 EVE domain; Region: EVE; pfam01878 212042002662 cell division protein FtsZ; Validated; Region: PRK09330 212042002663 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 212042002664 nucleotide binding site [chemical binding]; other site 212042002665 SulA interaction site; other site 212042002666 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cl17280 212042002667 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 212042002668 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 212042002669 Flavoprotein; Region: Flavoprotein; pfam02441 212042002670 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 212042002671 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 212042002672 ssDNA binding site; other site 212042002673 generic binding surface II; other site 212042002674 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 212042002675 ATP binding site [chemical binding]; other site 212042002676 putative Mg++ binding site [ion binding]; other site 212042002677 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 212042002678 nucleotide binding region [chemical binding]; other site 212042002679 ATP-binding site [chemical binding]; other site 212042002680 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 212042002681 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 212042002682 putative NAD(P) binding site [chemical binding]; other site 212042002683 active site 212042002684 amidophosphoribosyltransferase; Provisional; Region: PRK09123 212042002685 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 212042002686 active site 212042002687 tetramer interface [polypeptide binding]; other site 212042002688 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212042002689 active site 212042002690 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 212042002691 putative active site [active] 212042002692 catalytic residue [active] 212042002693 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 212042002694 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 212042002695 5S rRNA interface [nucleotide binding]; other site 212042002696 CTC domain interface [polypeptide binding]; other site 212042002697 L16 interface [polypeptide binding]; other site 212042002698 comF family protein; Region: comF; TIGR00201 212042002699 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 212042002700 active site 212042002701 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 212042002702 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 212042002703 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 212042002704 TrkA-N domain; Region: TrkA_N; pfam02254 212042002705 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 212042002706 putative catalytic residue [active] 212042002707 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 212042002708 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 212042002709 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 212042002710 alpha subunit interface [polypeptide binding]; other site 212042002711 TPP binding site [chemical binding]; other site 212042002712 heterodimer interface [polypeptide binding]; other site 212042002713 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 212042002714 protease TldD; Provisional; Region: tldD; PRK10735 212042002715 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002716 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002717 identified by match to protein family HMM PF01617; similar to P44-5 outer membrane protein, silent 212042002718 similar to P44-26 outer membrane protein, silent 212042002719 GTP cyclohydrolase; Provisional; Region: PRK08815 212042002720 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 212042002721 dimerization interface [polypeptide binding]; other site 212042002722 active site 212042002723 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 212042002724 binding surface 212042002725 Tetratricopeptide repeat; Region: TPR_16; pfam13432 212042002726 TPR motif; other site 212042002727 Methyltransferase domain; Region: Methyltransf_23; pfam13489 212042002728 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 212042002729 S-adenosylmethionine binding site [chemical binding]; other site 212042002730 Phosphoglycerate kinase; Region: PGK; pfam00162 212042002731 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 212042002732 substrate binding site [chemical binding]; other site 212042002733 hinge regions; other site 212042002734 ADP binding site [chemical binding]; other site 212042002735 catalytic site [active] 212042002736 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 212042002737 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 212042002738 generic binding surface II; other site 212042002739 generic binding surface I; other site 212042002740 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 212042002741 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 212042002742 similar to P44 outer membrane protein, N-terminal fragment 212042002743 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002744 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002745 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 212042002746 Protein export membrane protein; Region: SecD_SecF; cl14618 212042002747 similar to P44-17 outermembrane protein, silent 212042002748 identified by match to protein family HMM PF01617; similar to P44-60 outer membrane protein, silent 212042002749 similar to P44-29 outer membrane protein, silent 212042002750 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 212042002751 SmpB-tmRNA interface; other site 212042002752 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 212042002753 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 212042002754 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 212042002755 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 212042002756 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 212042002757 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 212042002758 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 212042002759 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 212042002760 beta subunit interaction interface [polypeptide binding]; other site 212042002761 Walker A motif; other site 212042002762 ATP binding site [chemical binding]; other site 212042002763 Walker B motif; other site 212042002764 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 212042002765 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 212042002766 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 212042002767 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 212042002768 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 212042002769 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 212042002770 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 212042002771 FtsX-like permease family; Region: FtsX; pfam02687 212042002772 similar to P44-31 outer membrane protein, silent 212042002773 similar to P44-58 outer membrane protein, silent 212042002774 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 212042002775 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 212042002776 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 212042002777 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 212042002778 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 212042002779 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 212042002780 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14964 212042002781 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 212042002782 Walker A motif; other site 212042002783 ATP binding site [chemical binding]; other site 212042002784 Walker B motif; other site 212042002785 arginine finger; other site 212042002786 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 212042002787 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 212042002788 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 212042002789 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 212042002790 similar to P44-51 outer membrane protein, silent 212042002791 identified by similarity to GB:AAO30097.1; match to protein family HMM PF01617; similar to P44-35 outer membrane protein, silent 212042002792 identified by match to protein family HMM PF01617; similar to P44-30 outer membrane protein, silent 212042002793 recombinase A; Provisional; Region: recA; PRK09354 212042002794 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 212042002795 hexamer interface [polypeptide binding]; other site 212042002796 Walker A motif; other site 212042002797 ATP binding site [chemical binding]; other site 212042002798 Walker B motif; other site 212042002799 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002800 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002801 identified by Glimmer2; putative; similar to hypothetical protein 212042002802 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002803 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002804 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 212042002805 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 212042002806 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002807 Zinc-finger domain; Region: zf-CHCC; cl01821 212042002808 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 212042002809 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 212042002810 excinuclease ABC subunit B; Provisional; Region: PRK05298 212042002811 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 212042002812 ATP binding site [chemical binding]; other site 212042002813 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 212042002814 nucleotide binding region [chemical binding]; other site 212042002815 ATP-binding site [chemical binding]; other site 212042002816 Ultra-violet resistance protein B; Region: UvrB; pfam12344 212042002817 UvrB/uvrC motif; Region: UVR; pfam02151 212042002818 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 212042002819 Fe-S cluster binding site [ion binding]; other site 212042002820 active site 212042002821 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 212042002822 active site 212042002823 catalytic residues [active] 212042002824 metal binding site [ion binding]; metal-binding site 212042002825 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 212042002826 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 212042002827 putative acyl-acceptor binding pocket; other site 212042002828 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 212042002829 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; cl00234 212042002830 active site 212042002831 metal binding site [ion binding]; metal-binding site 212042002832 catalytic residues [active] 212042002833 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 212042002834 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 212042002835 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 212042002836 similar to P44 outer membrane protein, C-terminal fragment 212042002837 similar to P44-20 outer membrane protein, silent 212042002838 identified by match to protein family HMM PF01617; similar to P44-9 outer membrane protein, silent 212042002839 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002840 Surface antigen; Region: Surface_Ag_2; pfam01617 212042002841 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 212042002842 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 212042002843 CcmB protein; Region: CcmB; cl17444 212042002844 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 212042002845 similar to P44 outer membrane protein, C-terminal fragment 212042002846 similar to P44-37 outer membrane protein, silent 212042002847 similar to P44-22 outer membrane protein, silent 212042002848 type IV secretion system component VirD4; Provisional; Region: PRK13897 212042002849 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 212042002850 Walker A motif; other site 212042002851 ATP binding site [chemical binding]; other site 212042002852 Walker B motif; other site 212042002853 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 212042002854 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 212042002855 Walker A motif; other site 212042002856 hexamer interface [polypeptide binding]; other site 212042002857 ATP binding site [chemical binding]; other site 212042002858 Walker B motif; other site 212042002859 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 212042002860 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 212042002861 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 212042002862 VirB7 interaction site; other site 212042002863 VirB8 protein; Region: VirB8; pfam04335 212042002864 similar to P44-59 outer membrane protein, silent 212042002865 recombination protein F; Reviewed; Region: recF; PRK00064 212042002866 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212042002867 Walker A/P-loop; other site 212042002868 ATP binding site [chemical binding]; other site 212042002869 Q-loop/lid; other site 212042002870 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 212042002871 ABC transporter signature motif; other site 212042002872 Walker B; other site 212042002873 D-loop; other site 212042002874 H-loop/switch region; other site