-- dump date 20120504_153249 -- class Genbank::misc_feature -- table misc_feature_note -- id note 243273000001 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 243273000002 DNA polymerase III beta subunit; Region: POL3Bc; smart00480 243273000003 putative DNA binding surface [nucleotide binding]; other site 243273000004 dimer interface [polypeptide binding]; other site 243273000005 beta-clamp/clamp loader binding surface; other site 243273000006 beta-clamp/translesion DNA polymerase binding surface; other site 243273000007 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 243273000008 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 243273000009 HSP70 interaction site [polypeptide binding]; other site 243273000010 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 243273000011 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 243273000012 ATP binding site [chemical binding]; other site 243273000013 Mg2+ binding site [ion binding]; other site 243273000014 G-X-G motif; other site 243273000015 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 243273000016 anchoring element; other site 243273000017 dimer interface [polypeptide binding]; other site 243273000018 ATP binding site [chemical binding]; other site 243273000019 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 243273000020 active site 243273000021 putative metal-binding site [ion binding]; other site 243273000022 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 243273000023 DNA gyrase, A subunit; Region: gyrA; TIGR01063 243273000024 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 in DNA...; Region: TOP4c; cd00187 243273000025 CAP-like domain; other site 243273000026 active site 243273000027 primary dimer interface [polypeptide binding]; other site 243273000028 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243273000029 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243273000030 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243273000031 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243273000032 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243273000033 seryl-tRNA synthetase; Region: serS; TIGR00414 243273000034 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 243273000035 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 bound...; Region: SerRS_core; cd00770 243273000036 dimer interface [polypeptide binding]; other site 243273000037 active site 243273000038 motif 1; other site 243273000039 motif 2; other site 243273000040 motif 3; other site 243273000041 thymidylate kinase; Region: DTMP_kinase; TIGR00041 243273000042 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 243273000043 TMP-binding site; other site 243273000044 ATP-binding site [chemical binding]; other site 243273000045 DNA polymerase III subunit delta'; Validated; Region: PRK05818 243273000046 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 243273000047 tRNA modification GTPase TrmE; Region: mnmE_trmE_thdF; TIGR00450 243273000048 trmE is a tRNA modification GTPase; Region: trmE; cd04164 243273000049 G1 box; other site 243273000050 GTP/Mg2+ binding site [chemical binding]; other site 243273000051 Switch I region; other site 243273000052 G2 box; other site 243273000053 Switch II region; other site 243273000054 G3 box; other site 243273000055 G4 box; other site 243273000056 G5 box; other site 243273000057 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 243273000058 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 243273000059 active site 243273000060 DNA primase-related protein; Region: MG010; TIGR00646 243273000061 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 243273000062 active site 243273000063 metal binding site [ion binding]; metal-binding site 243273000064 interdomain interaction site; other site 243273000065 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 243273000066 ATP-grasp domain; Region: ATP-grasp_4; cl03087 243273000067 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 243273000068 ATP-grasp domain; Region: ATP-grasp_4; cl03087 243273000069 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 243273000070 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 243273000071 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 243273000072 homodimer interface [polypeptide binding]; other site 243273000073 NADP binding site [chemical binding]; other site 243273000074 substrate binding site [chemical binding]; other site 243273000075 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 243273000076 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 243273000077 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273000078 Walker A/P-loop; other site 243273000079 ATP binding site [chemical binding]; other site 243273000080 Q-loop/lid; other site 243273000081 ABC transporter signature motif; other site 243273000082 Walker B; other site 243273000083 D-loop; other site 243273000084 H-loop/switch region; other site 243273000085 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 243273000086 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 243273000087 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 243273000088 Walker A/P-loop; other site 243273000089 ATP binding site [chemical binding]; other site 243273000090 Q-loop/lid; other site 243273000091 ABC transporter signature motif; other site 243273000092 Walker B; other site 243273000093 D-loop; other site 243273000094 H-loop/switch region; other site 243273000095 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 243273000096 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 243273000097 ATP binding site [chemical binding]; other site 243273000098 putative Mg++ binding site [ion binding]; other site 243273000099 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 243273000100 nucleotide binding region [chemical binding]; other site 243273000101 ATP-binding site [chemical binding]; other site 243273000102 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 243273000103 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 243273000104 HSP70 interaction site [polypeptide binding]; other site 243273000105 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 243273000106 Zn binding sites [ion binding]; other site 243273000107 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 243273000108 substrate binding site [polypeptide binding]; other site 243273000109 dimer interface [polypeptide binding]; other site 243273000110 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 243273000111 Serine carboxypeptidase S28; Region: Peptidase_S28; cl15279 243273000112 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 243273000113 methionyl-tRNA synthetase; Region: metG; TIGR00398 243273000114 active site 243273000115 HIGH motif; other site 243273000116 KMSKS motif; other site 243273000117 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 243273000118 tRNA binding surface [nucleotide binding]; other site 243273000119 anticodon binding site; other site 243273000120 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 243273000121 hypothetical protein; Provisional; Region: PRK08185 243273000122 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 243273000123 intersubunit interface [polypeptide binding]; other site 243273000124 active site 243273000125 zinc binding site [ion binding]; other site 243273000126 Na+ binding site [ion binding]; other site 243273000127 GTP-binding protein YchF; Reviewed; Region: PRK09601 243273000128 YchF GTPase; Region: YchF; cd01900 243273000129 G1 box; other site 243273000130 GTP/Mg2+ binding site [chemical binding]; other site 243273000131 Switch I region; other site 243273000132 G2 box; other site 243273000133 Switch II region; other site 243273000134 G3 box; other site 243273000135 G4 box; other site 243273000136 G5 box; other site 243273000137 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 243273000138 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 243273000139 active site 243273000140 elongation factor P; Validated; Region: PRK00529 243273000141 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 243273000142 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 243273000143 RNA binding site [nucleotide binding]; other site 243273000144 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 243273000145 RNA binding site [nucleotide binding]; other site 243273000146 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 243273000147 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 243273000148 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 243273000149 conserved cys residue [active] 243273000150 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 243273000151 active site 243273000152 DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]; Region: PolC; COG2176 243273000153 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 243273000154 generic binding surface II; other site 243273000155 generic binding surface I; other site 243273000156 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 243273000157 active site 243273000158 catalytic site [active] 243273000159 substrate binding site [chemical binding]; other site 243273000160 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 243273000161 Protein of unknown function, DUF655; Region: DUF655; pfam04919 243273000162 MG032/MG096/MG288 family 2; Region: DUF240; pfam03086 243273000163 MG032/MG096/MG288 family 1; Region: DUF237; pfam03072 243273000164 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 243273000165 amphipathic channel; other site 243273000166 Asn-Pro-Ala signature motifs; other site 243273000167 Thymidine kinase [Nucleotide transport and metabolism]; Region: Tdk; COG1435 243273000168 histidyl-tRNA synthetase; Region: hisS; TIGR00442 243273000169 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 ATP-dependent...; Region: HisRS-like_core; cd00773 243273000170 dimer interface [polypeptide binding]; other site 243273000171 motif 1; other site 243273000172 active site 243273000173 motif 2; other site 243273000174 motif 3; other site 243273000175 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 243273000176 anticodon binding site; other site 243273000177 aspartyl-tRNA synthetase, bacterial type; Region: aspS_bact; TIGR00459 243273000178 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 243273000179 Dimer interface [polypeptide binding]; other site 243273000180 anticodon binding site; other site 243273000181 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 the...; Region: AspRS_core; cd00777 243273000182 homodimer interface [polypeptide binding]; other site 243273000183 motif 1; other site 243273000184 active site 243273000185 motif 2; other site 243273000186 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 attaches...; Region: class_II_aaRS-like_core; cl00268 243273000187 active site 243273000188 motif 3; other site 243273000189 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 243273000190 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 243273000191 active site 243273000192 glycerol kinase; Provisional; Region: glpK; PRK00047 243273000193 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 243273000194 N- and C-terminal domain interface [polypeptide binding]; other site 243273000195 active site 243273000196 MgATP binding site [chemical binding]; other site 243273000197 catalytic site [active] 243273000198 metal binding site [ion binding]; metal-binding site 243273000199 glycerol binding site [chemical binding]; other site 243273000200 homotetramer interface [polypeptide binding]; other site 243273000201 homodimer interface [polypeptide binding]; other site 243273000202 FBP binding site [chemical binding]; other site 243273000203 protein IIAGlc interface [polypeptide binding]; other site 243273000204 Predicted dehydrogenase [General function prediction only]; Region: COG0579 243273000205 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 243273000206 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 243273000207 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 243273000208 dimerization domain swap beta strand [polypeptide binding]; other site 243273000209 regulatory protein interface [polypeptide binding]; other site 243273000210 active site 243273000211 regulatory phosphorylation site [posttranslational modification]; other site 243273000212 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273000213 Walker A/P-loop; other site 243273000214 ATP binding site [chemical binding]; other site 243273000215 Q-loop/lid; other site 243273000216 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 243273000217 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273000218 ABC transporter signature motif; other site 243273000219 Walker B; other site 243273000220 D-loop; other site 243273000221 H-loop/switch region; other site 243273000222 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 243273000223 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 243273000224 dimer interface [polypeptide binding]; other site 243273000225 conserved gate region; other site 243273000226 putative PBP binding loops; other site 243273000227 ABC-ATPase subunit interface; other site 243273000228 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 243273000229 dimer interface [polypeptide binding]; other site 243273000230 conserved gate region; other site 243273000231 putative PBP binding loops; other site 243273000232 ABC-ATPase subunit interface; other site 243273000233 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 243273000234 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 243273000235 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 243273000236 S-adenosylmethionine synthetase; Region: metK; TIGR01034 243273000237 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 243273000238 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 243273000239 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 243273000240 signal recognition particle protein; Region: ffh; TIGR00959 243273000241 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 243273000242 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273000243 Signal peptide binding domain; Region: SRP_SPB; pfam02978 243273000244 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 243273000245 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 243273000246 intersubunit interface [polypeptide binding]; other site 243273000247 active site 243273000248 catalytic residue [active] 243273000249 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 243273000250 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 243273000251 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 243273000252 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 243273000253 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 243273000254 active site 243273000255 catalytic motif [active] 243273000256 Zn binding site [ion binding]; other site 243273000257 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 243273000258 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 243273000259 active site 243273000260 substrate binding site [chemical binding]; other site 243273000261 metal binding site [ion binding]; metal-binding site 243273000262 NusG family protein; Region: NusG_myco; TIGR01956 243273000263 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 243273000264 putative homodimer interface [polypeptide binding]; other site 243273000265 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 243273000266 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 243273000267 probable S-adenosylmethionine-dependent methyltransferase, YraL family; Region: TIGR00096 243273000268 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 243273000269 putative active site [active] 243273000270 putative metal binding site [ion binding]; other site 243273000271 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK00553 243273000272 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 243273000273 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 243273000274 active site 243273000275 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 243273000276 SmpB-tmRNA interface; other site 243273000277 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 243273000278 active site 243273000279 Mycoplasma MFS transporter; Region: MFS_Mycoplasma; pfam07672 243273000280 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 243273000281 active site 243273000282 phosphorylation site [posttranslational modification] 243273000283 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 243273000284 active site 243273000285 P-loop; other site 243273000286 phosphorylation site [posttranslational modification] 243273000287 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243273000288 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 243273000289 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 243273000290 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 243273000291 putative substrate binding site [chemical binding]; other site 243273000292 putative ATP binding site [chemical binding]; other site 243273000293 FtsX-like permease family; Region: FtsX; cl15850 243273000294 FtsX-like permease family; Region: FtsX; cl15850 243273000295 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 243273000296 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 243273000297 Walker A/P-loop; other site 243273000298 ATP binding site [chemical binding]; other site 243273000299 Q-loop/lid; other site 243273000300 ABC transporter signature motif; other site 243273000301 Walker B; other site 243273000302 D-loop; other site 243273000303 H-loop/switch region; other site 243273000304 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 243273000305 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 243273000306 TPP-binding site [chemical binding]; other site 243273000307 dimer interface [polypeptide binding]; other site 243273000308 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 243273000309 PYR/PP interface [polypeptide binding]; other site 243273000310 dimer interface [polypeptide binding]; other site 243273000311 TPP binding site [chemical binding]; other site 243273000312 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 243273000313 Putative peptidase (DUF31); Region: DUF31; pfam01732 243273000314 Putative peptidase (DUF31); Region: DUF31; pfam01732 243273000315 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243273000316 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243273000317 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 243273000318 active site turn [active] 243273000319 phosphorylation site [posttranslational modification] 243273000320 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 243273000321 HPr interaction site; other site 243273000322 glycerol kinase (GK) interaction site [polypeptide binding]; other site 243273000323 active site 243273000324 phosphorylation site [posttranslational modification] 243273000325 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 243273000326 rRNA interaction site [nucleotide binding]; other site 243273000327 S8 interaction site; other site 243273000328 putative laminin-1 binding site; other site 243273000329 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 243273000330 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 243273000331 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 243273000332 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 243273000333 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243273000334 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 243273000335 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12903 243273000336 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 243273000337 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273000338 nucleotide binding region [chemical binding]; other site 243273000339 ATP-binding site [chemical binding]; other site 243273000340 excinuclease ABC, B subunit; Region: uvrb; TIGR00631 243273000341 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 243273000342 ATP binding site [chemical binding]; other site 243273000343 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 243273000344 nucleotide binding region [chemical binding]; other site 243273000345 ATP-binding site [chemical binding]; other site 243273000346 Ultra-violet resistance protein B; Region: UvrB; pfam12344 243273000347 UvrB/uvrC motif; Region: UVR; pfam02151 243273000348 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 243273000349 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; cl00427 243273000350 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 243273000351 dimer interface [polypeptide binding]; other site 243273000352 conserved gate region; other site 243273000353 putative PBP binding loops; other site 243273000354 ABC-ATPase subunit interface; other site 243273000355 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 243273000356 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243273000357 Walker A/P-loop; other site 243273000358 ATP binding site [chemical binding]; other site 243273000359 Q-loop/lid; other site 243273000360 ABC transporter signature motif; other site 243273000361 Walker B; other site 243273000362 D-loop; other site 243273000363 H-loop/switch region; other site 243273000364 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243273000365 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273000366 Walker A/P-loop; other site 243273000367 ATP binding site [chemical binding]; other site 243273000368 Q-loop/lid; other site 243273000369 AAA domain; Region: AAA_21; pfam13304 243273000370 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243273000371 ABC transporter signature motif; other site 243273000372 Walker B; other site 243273000373 D-loop; other site 243273000374 H-loop/switch region; other site 243273000375 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243273000376 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 243273000377 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 243273000378 23S rRNA interface [nucleotide binding]; other site 243273000379 L7/L12 interface [polypeptide binding]; other site 243273000380 putative thiostrepton binding site; other site 243273000381 L25 interface [polypeptide binding]; other site 243273000382 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 243273000383 mRNA/rRNA interface [nucleotide binding]; other site 243273000384 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 243273000385 putative active site [active] 243273000386 catalytic residue [active] 243273000387 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 243273000388 Ligand Binding Site [chemical binding]; other site 243273000389 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 243273000390 DRTGG domain; Region: DRTGG; cl12147 243273000391 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 243273000392 Hpr binding site; other site 243273000393 active site 243273000394 homohexamer subunit interaction site [polypeptide binding]; other site 243273000395 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 243273000396 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 243273000397 16S rRNA interaction site [nucleotide binding]; other site 243273000398 streptomycin interaction site [chemical binding]; other site 243273000399 23S rRNA interaction site [nucleotide binding]; other site 243273000400 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 243273000401 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 243273000402 elongation factor G; Reviewed; Region: PRK12739 243273000403 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 243273000404 G1 box; other site 243273000405 putative GEF interaction site [polypeptide binding]; other site 243273000406 GTP/Mg2+ binding site [chemical binding]; other site 243273000407 Switch I region; other site 243273000408 G2 box; other site 243273000409 G3 box; other site 243273000410 Switch II region; other site 243273000411 G4 box; other site 243273000412 G5 box; other site 243273000413 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 243273000414 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 243273000415 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 243273000416 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 243273000417 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 243273000418 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 243273000419 dimer interface [polypeptide binding]; other site 243273000420 ssDNA binding site [nucleotide binding]; other site 243273000421 tetramer (dimer of dimers) interface [polypeptide binding]; other site 243273000422 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 243273000423 ribosomal protein L9; Region: L9; TIGR00158 243273000424 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 243273000425 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 243273000426 replicative DNA helicase; Region: DnaB; TIGR00665 243273000427 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 243273000428 Walker A motif; other site 243273000429 ATP binding site [chemical binding]; other site 243273000430 Walker B motif; other site 243273000431 DNA binding loops [nucleotide binding] 243273000432 MG032/MG096/MG288 family 2; Region: DUF240; pfam03086 243273000433 MG032/MG096/MG288 family 1; Region: DUF237; pfam03072 243273000434 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 243273000435 ligand binding site [chemical binding]; other site 243273000436 active site 243273000437 UGI interface [polypeptide binding]; other site 243273000438 catalytic site [active] 243273000439 aspartyl/glutamyl-tRNA amidotransferase subunit C-like protein; Provisional; Region: PRK12821 243273000440 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 243273000441 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 243273000442 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 243273000443 Amidase; Region: Amidase; cl11426 243273000444 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, B subunit; Region: gatB; TIGR00133 243273000445 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 243273000446 GatB domain; Region: GatB_Yqey; cl11497 243273000447 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 243273000448 DNA-binding site [nucleotide binding]; DNA binding site 243273000449 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 243273000450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243273000451 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 243273000452 conserved hypothetical protein; Region: MG103; TIGR00647 243273000453 Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains; Region: RhoGEF; cl02571 243273000454 Preprotein translocase SecG subunit; Region: SecG; cl09123 243273000455 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 243273000456 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 243273000457 RNB domain; Region: RNB; pfam00773 243273000458 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 243273000459 RNA binding site [nucleotide binding]; other site 243273000460 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 243273000461 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 243273000462 active site 243273000463 catalytic residues [active] 243273000464 metal binding site [ion binding]; metal-binding site 243273000465 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 243273000466 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 243273000467 catalytic site [active] 243273000468 G-X2-G-X-G-K; other site 243273000469 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 243273000470 Protein phosphatase 2C; Region: PP2C; pfam00481 243273000471 active site 243273000472 Protein kinase domain; Region: Pkinase; pfam00069 243273000473 Catalytic domain of Protein Kinases; Region: PKc; cd00180 243273000474 active site 243273000475 ATP binding site [chemical binding]; other site 243273000476 substrate binding site [chemical binding]; other site 243273000477 activation loop (A-loop); other site 243273000478 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 243273000479 RNA binding site [nucleotide binding]; other site 243273000480 ribosome small subunit-dependent GTPase A; Region: TIGR00157 243273000481 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 243273000482 GTPase/Zn-binding domain interface [polypeptide binding]; other site 243273000483 GTP/Mg2+ binding site [chemical binding]; other site 243273000484 G4 box; other site 243273000485 G5 box; other site 243273000486 G1 box; other site 243273000487 Switch I region; other site 243273000488 G2 box; other site 243273000489 G3 box; other site 243273000490 Switch II region; other site 243273000491 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 243273000492 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 243273000493 active site 243273000494 dimer interface [polypeptide binding]; other site 243273000495 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 243273000496 dimer interface [polypeptide binding]; other site 243273000497 active site 243273000498 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 243273000499 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 243273000500 substrate binding site [chemical binding]; other site 243273000501 hexamer interface [polypeptide binding]; other site 243273000502 metal binding site [ion binding]; metal-binding site 243273000503 asparaginyl-tRNA synthetase; Region: asnS; TIGR00457 243273000504 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 243273000505 putative dimer interface [polypeptide binding]; other site 243273000506 putative anticodon binding site; other site 243273000507 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 243273000508 homodimer interface [polypeptide binding]; other site 243273000509 motif 1; other site 243273000510 motif 2; other site 243273000511 active site 243273000512 motif 3; other site 243273000513 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 243273000514 Competence-damaged protein; Region: CinA; cl00666 243273000515 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 243273000516 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 243273000517 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 243273000518 NAD binding site [chemical binding]; other site 243273000519 homodimer interface [polypeptide binding]; other site 243273000520 active site 243273000521 substrate binding site [chemical binding]; other site 243273000522 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 243273000523 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273000524 Walker A/P-loop; other site 243273000525 ATP binding site [chemical binding]; other site 243273000526 Q-loop/lid; other site 243273000527 ABC transporter signature motif; other site 243273000528 Walker B; other site 243273000529 D-loop; other site 243273000530 H-loop/switch region; other site 243273000531 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 243273000532 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 243273000533 TM-ABC transporter signature motif; other site 243273000534 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 243273000535 TM-ABC transporter signature motif; other site 243273000536 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 243273000537 DNA topoisomerase I, bacterial; Region: topA_bact; TIGR01051 243273000538 active site 243273000539 interdomain interaction site; other site 243273000540 putative metal-binding site [ion binding]; other site 243273000541 nucleotide binding site [chemical binding]; other site 243273000542 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; cl11986 243273000543 domain I; other site 243273000544 phosphate binding site [ion binding]; other site 243273000545 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 243273000546 domain II; other site 243273000547 domain III; other site 243273000548 nucleotide binding site [chemical binding]; other site 243273000549 DNA binding groove [nucleotide binding] 243273000550 catalytic site [active] 243273000551 domain IV; other site 243273000552 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 243273000553 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 243273000554 hypothetical protein; Provisional; Region: PRK12705 243273000555 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 243273000556 catalytic residues [active] 243273000557 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 243273000558 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 243273000559 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 243273000560 active site 243273000561 HIGH motif; other site 243273000562 dimer interface [polypeptide binding]; other site 243273000563 KMSKS motif; other site 243273000564 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 243273000565 ArsC family; Region: ArsC; pfam03960 243273000566 putative catalytic residues [active] 243273000567 thiol/disulfide switch; other site 243273000568 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 243273000569 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 243273000570 active site turn [active] 243273000571 phosphorylation site [posttranslational modification] 243273000572 hypothetical protein; Provisional; Region: PRK12705 243273000573 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243273000574 Zn2+ binding site [ion binding]; other site 243273000575 Mg2+ binding site [ion binding]; other site 243273000576 similar to hypothetical proteins from other bacteria; contains a frameshift 243273000577 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 243273000578 HIT family signature motif; other site 243273000579 catalytic residue [active] 243273000580 Protein of unknown function (DUF1600); Region: DUF1600; pfam07667 243273000581 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 243273000582 lysyl-tRNA synthetase, eukaryotic and non-spirochete bacterial; Region: lysS_bact; TIGR00499 243273000583 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 243273000584 dimer interface [polypeptide binding]; other site 243273000585 putative anticodon binding site; other site 243273000586 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 243273000587 motif 1; other site 243273000588 active site 243273000589 motif 2; other site 243273000590 motif 3; other site 243273000591 UDP-galactopyranose mutase; Region: UDP-GALP_mutase; TIGR00031 243273000592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243273000593 UDP-galactopyranose mutase; Region: GLF; pfam03275 243273000594 GTP-binding protein LepA; Provisional; Region: PRK05433 243273000595 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 243273000596 G1 box; other site 243273000597 putative GEF interaction site [polypeptide binding]; other site 243273000598 GTP/Mg2+ binding site [chemical binding]; other site 243273000599 Switch I region; other site 243273000600 G2 box; other site 243273000601 G3 box; other site 243273000602 Switch II region; other site 243273000603 G4 box; other site 243273000604 G5 box; other site 243273000605 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 243273000606 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 243273000607 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 243273000608 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 243273000609 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243273000610 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 243273000611 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 243273000612 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 243273000613 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273000614 Family description; Region: UvrD_C_2; cl15862 243273000615 transcription termination factor NusA; Region: NusA; TIGR01953 243273000616 NusA N-terminal domain; Region: NusA_N; pfam08529 243273000617 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 243273000618 RNA binding site [nucleotide binding]; other site 243273000619 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 243273000620 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 243273000621 G-X-X-G motif; other site 243273000622 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 243273000623 putative RNA binding cleft [nucleotide binding]; other site 243273000624 translation initiation factor IF-2; Region: IF-2; TIGR00487 243273000625 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 243273000626 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 243273000627 G1 box; other site 243273000628 putative GEF interaction site [polypeptide binding]; other site 243273000629 GTP/Mg2+ binding site [chemical binding]; other site 243273000630 Switch I region; other site 243273000631 G2 box; other site 243273000632 G3 box; other site 243273000633 Switch II region; other site 243273000634 G4 box; other site 243273000635 G5 box; other site 243273000636 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 243273000637 Translation-initiation factor 2; Region: IF-2; pfam11987 243273000638 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 243273000639 Ribosome-binding factor A; Region: RBFA; cl00542 243273000640 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 243273000641 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 243273000642 active site 243273000643 nucleotide binding site [chemical binding]; other site 243273000644 HIGH motif; other site 243273000645 KMSKS motif; other site 243273000646 Riboflavin kinase; Region: Flavokinase; cl03312 243273000647 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 243273000648 Domain of unknown function DUF21; Region: DUF21; pfam01595 243273000649 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 243273000650 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 243273000651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 243273000652 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 243273000653 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 243273000654 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 243273000655 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 243273000656 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 243273000657 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 243273000658 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 243273000659 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 243273000660 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 243273000661 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 243273000662 putative translocon binding site; other site 243273000663 protein-rRNA interface [nucleotide binding]; other site 243273000664 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 243273000665 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 243273000666 G-X-X-G motif; other site 243273000667 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 243273000668 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 243273000669 23S rRNA interface [nucleotide binding]; other site 243273000670 5S rRNA interface [nucleotide binding]; other site 243273000671 putative antibiotic binding site [chemical binding]; other site 243273000672 L25 interface [polypeptide binding]; other site 243273000673 L27 interface [polypeptide binding]; other site 243273000674 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 243273000675 23S rRNA interface [nucleotide binding]; other site 243273000676 putative translocon interaction site; other site 243273000677 signal recognition particle (SRP54) interaction site; other site 243273000678 L23 interface [polypeptide binding]; other site 243273000679 trigger factor interaction site; other site 243273000680 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 243273000681 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 243273000682 ribosomal protein L24, bacterial/organelle; Region: rplX_bact; TIGR01079 243273000683 KOW motif; Region: KOW; cl00354 243273000684 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 243273000685 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 243273000686 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 243273000687 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 243273000688 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 243273000689 ribosomal protein L6, bacterial type; Region: L6_bact; TIGR03654 243273000690 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 243273000691 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 243273000692 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 243273000693 5S rRNA interface [nucleotide binding]; other site 243273000694 23S rRNA interface [nucleotide binding]; other site 243273000695 L5 interface [polypeptide binding]; other site 243273000696 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 243273000697 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 243273000698 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 243273000699 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 243273000700 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 243273000701 SecY translocase; Region: SecY; pfam00344 243273000702 adenylate kinases; Region: adk; TIGR01351 243273000703 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273000704 Adenylate kinase, active site lid; Region: ADK_lid; pfam05191 243273000705 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 243273000706 active site 243273000707 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 243273000708 rRNA binding site [nucleotide binding]; other site 243273000709 predicted 30S ribosome binding site; other site 243273000710 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 243273000711 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 243273000712 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 243273000713 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 243273000714 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 243273000715 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 243273000716 alphaNTD - beta interaction site [polypeptide binding]; other site 243273000717 alphaNTD homodimer interface [polypeptide binding]; other site 243273000718 alphaNTD - beta' interaction site [polypeptide binding]; other site 243273000719 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 243273000720 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 243273000721 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13632 243273000722 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 243273000723 Walker A/P-loop; other site 243273000724 ATP binding site [chemical binding]; other site 243273000725 Q-loop/lid; other site 243273000726 ABC transporter signature motif; other site 243273000727 Walker B; other site 243273000728 D-loop; other site 243273000729 H-loop/switch region; other site 243273000730 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13631 243273000731 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 243273000732 Walker A/P-loop; other site 243273000733 ATP binding site [chemical binding]; other site 243273000734 Q-loop/lid; other site 243273000735 ABC transporter signature motif; other site 243273000736 Walker B; other site 243273000737 D-loop; other site 243273000738 H-loop/switch region; other site 243273000739 Cobalt transport protein; Region: CbiQ; cl00463 243273000740 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 243273000741 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 243273000742 dimerization interface 3.5A [polypeptide binding]; other site 243273000743 active site 243273000744 oligoendopeptidase F; Region: pepF; TIGR00181 243273000745 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 243273000746 active site 243273000747 Zn binding site [ion binding]; other site 243273000748 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 243273000749 Mycoplasma MG185/MG260 protein; Region: Lipoprotein_X; pfam03305 243273000750 Putative mycoplasma lipoprotein, C-terminal region; Region: Lipoprotein_10; pfam03202 243273000751 Staphylococcal nuclease homologues; Region: SNc; smart00318 243273000752 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 243273000753 Catalytic site; other site 243273000754 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 243273000755 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273000756 Walker A/P-loop; other site 243273000757 ATP binding site [chemical binding]; other site 243273000758 Q-loop/lid; other site 243273000759 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273000760 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 243273000761 ABC transporter signature motif; other site 243273000762 Walker B; other site 243273000763 D-loop; other site 243273000764 H-loop/switch region; other site 243273000765 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 243273000766 dimer interface [polypeptide binding]; other site 243273000767 conserved gate region; other site 243273000768 putative PBP binding loops; other site 243273000769 ABC-ATPase subunit interface; other site 243273000770 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 243273000771 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 243273000772 dimer interface [polypeptide binding]; other site 243273000773 conserved gate region; other site 243273000774 putative PBP binding loops; other site 243273000775 ABC-ATPase subunit interface; other site 243273000776 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 243273000777 DHH family; Region: DHH; pfam01368 243273000778 DHHA1 domain; Region: DHHA1; pfam02272 243273000779 adhesin P1; Region: termin_org_P1; TIGR03839 243273000780 Trypsin-sensitive surface-exposed protein; Region: CytadhesinP1; pfam12378 243273000781 Trypsin-sensitive surface-exposed protein; Region: CytadhesinP1; pfam12378 243273000782 Mycoplasma adhesin P1; Region: Adhesin_P1; pfam03257 243273000783 MgpC protein precursor; Region: MgpC; pfam05220 243273000784 adhesin P1; Region: termin_org_P1; TIGR03839 243273000785 phenylalanyl-tRNA synthetase, alpha subunit; Region: pheS; TIGR00468 243273000786 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 243273000787 dimer interface [polypeptide binding]; other site 243273000788 motif 1; other site 243273000789 active site 243273000790 motif 2; other site 243273000791 motif 3; other site 243273000792 phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial; Region: pheT_bact; TIGR00472 243273000793 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 243273000794 putative tRNA-binding site [nucleotide binding]; other site 243273000795 B3/4 domain; Region: B3_4; cl11458 243273000796 tRNA synthetase B5 domain; Region: B5; cl08394 243273000797 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 243273000798 dimer interface [polypeptide binding]; other site 243273000799 motif 1; other site 243273000800 motif 3; other site 243273000801 motif 2; other site 243273000802 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 243273000803 translation initiation factor IF-3; Region: infC; TIGR00168 243273000804 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 243273000805 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 243273000806 ribosomal protein L20; Region: rpl20; CHL00068 243273000807 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 243273000808 23S rRNA binding site [nucleotide binding]; other site 243273000809 L21 binding site [polypeptide binding]; other site 243273000810 L13 binding site [polypeptide binding]; other site 243273000811 similar to ribonuclease HIII; contains a frameshift 243273000812 terminal organelle assembly protein TopJ; Region: termin_org_DnaJ; TIGR03835 243273000813 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 243273000814 HSP70 interaction site [polypeptide binding]; other site 243273000815 EAGR box; Region: EAGR_box; TIGR03834 243273000816 terminal organelle assembly protein TopJ; Region: termin_org_DnaJ; TIGR03835 243273000817 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 243273000818 substrate binding site [polypeptide binding]; other site 243273000819 dimer interface [polypeptide binding]; other site 243273000820 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 243273000821 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 243273000822 dimer interface [polypeptide binding]; other site 243273000823 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 243273000824 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 243273000825 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 243273000826 ATP binding site [chemical binding]; other site 243273000827 Mg2+ binding site [ion binding]; other site 243273000828 G-X-G motif; other site 243273000829 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 243273000830 anchoring element; other site 243273000831 dimer interface [polypeptide binding]; other site 243273000832 ATP binding site [chemical binding]; other site 243273000833 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 243273000834 active site 243273000835 metal binding site [ion binding]; metal-binding site 243273000836 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 243273000837 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 243273000838 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 in DNA...; Region: TOP4c; cd00187 243273000839 CAP-like domain; other site 243273000840 active site 243273000841 primary dimer interface [polypeptide binding]; other site 243273000842 Transcriptional regulator of heat shock gene [Transcription]; Region: HrcA; COG1420 243273000843 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 243273000844 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 243273000845 GIY-YIG motif/motif A; other site 243273000846 active site 243273000847 catalytic site [active] 243273000848 putative DNA binding site [nucleotide binding]; other site 243273000849 metal binding site [ion binding]; metal-binding site 243273000850 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 243273000851 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 243273000852 active site 243273000853 metal binding site [ion binding]; metal-binding site 243273000854 homotetramer interface [polypeptide binding]; other site 243273000855 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 243273000856 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 243273000857 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 243273000858 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 243273000859 active site 243273000860 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 243273000861 DivIVA domain; Region: DivI1A_domain; TIGR03544 243273000862 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 243273000863 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 243273000864 putative acyl-acceptor binding pocket; other site 243273000865 segregation and condensation protein A/unknown domain fusion protein; Provisional; Region: scpA; PRK00478 243273000866 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 243273000867 ScpA/B protein; Region: ScpA_ScpB; cl00598 243273000868 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 243273000869 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 243273000870 active site 243273000871 ADP/pyrophosphate binding site [chemical binding]; other site 243273000872 dimerization interface [polypeptide binding]; other site 243273000873 allosteric effector site; other site 243273000874 fructose-1,6-bisphosphate binding site; other site 243273000875 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 243273000876 pyruvate kinase; Region: pyruv_kin; TIGR01064 243273000877 domain interfaces; other site 243273000878 active site 243273000879 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 243273000880 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 243273000881 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 243273000882 mraZ protein; Region: TIGR00242 243273000883 MraZ protein; Region: MraZ; pfam02381 243273000884 MraZ protein; Region: MraZ; pfam02381 243273000885 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 243273000886 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; cl16911 243273000887 cell division protein FtsZ; Region: ftsZ; TIGR00065 243273000888 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 243273000889 nucleotide binding site [chemical binding]; other site 243273000890 SulA interaction site; other site 243273000891 Amino acid permease; Region: AA_permease_2; pfam13520 243273000892 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 243273000893 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 243273000894 dimerization interface [polypeptide binding]; other site 243273000895 active site 243273000896 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 243273000897 folate binding site [chemical binding]; other site 243273000898 NADP+ binding site [chemical binding]; other site 243273000899 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 243273000900 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 243273000901 dimer interface [polypeptide binding]; other site 243273000902 putative radical transfer pathway; other site 243273000903 diiron center [ion binding]; other site 243273000904 tyrosyl radical; other site 243273000905 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243273000906 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07187 243273000907 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 243273000908 Class I ribonucleotide reductase; Region: RNR_I; cd01679 243273000909 active site 243273000910 dimer interface [polypeptide binding]; other site 243273000911 catalytic residues [active] 243273000912 effector binding site; other site 243273000913 R2 peptide binding site; other site 243273000914 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 243273000915 Protein of unknown function (DUF464); Region: DUF464; cl01080 243273000916 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 243273000917 AP endonuclease family 2; Region: AP2Ec; smart00518 243273000918 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 243273000919 AP (apurinic/apyrimidinic) site pocket; other site 243273000920 DNA interaction; other site 243273000921 Metal-binding active site; metal-binding site 243273000922 Helix-turn-helix domains; Region: HTH; cl00088 243273000923 Protein of unknown function (DUF3196); Region: DUF3196; pfam11428 243273000924 trigger factor; Region: tig; TIGR00115 243273000925 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 243273000926 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 243273000927 ATP-dependent protease La; Region: lon; TIGR00763 243273000928 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 243273000929 Walker A motif; other site 243273000930 ATP binding site [chemical binding]; other site 243273000931 Walker B motif; other site 243273000932 arginine finger; other site 243273000933 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 243273000934 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 243273000935 putative nicotinate-nucleotide adenylyltransferase; Validated; Region: nadD; PRK07152 243273000936 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 243273000937 active site 243273000938 (T/H)XGH motif; other site 243273000939 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243273000940 Zn2+ binding site [ion binding]; other site 243273000941 Mg2+ binding site [ion binding]; other site 243273000942 similar to hypothetical proteins found in other bacteria; contains a frameshift 243273000943 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 243273000944 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273000945 Family description; Region: UvrD_C_2; cl15862 243273000946 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 243273000947 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 243273000948 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 243273000949 putative active site [active] 243273000950 metal binding site [ion binding]; metal-binding site 243273000951 homodimer binding site [polypeptide binding]; other site 243273000952 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 243273000953 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; cl16911 243273000954 RNA polymerase sigma factor; Provisional; Region: PRK05901 243273000955 Endoplasmic reticulum-based factor for assembly of V-ATPase; Region: Vma12; pfam11712 243273000956 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 243273000957 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 243273000958 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 243273000959 DNA primase (bacterial type) [DNA replication, recombination, and repair]; Region: DnaG; COG0358 243273000960 CHC2 zinc finger; Region: zf-CHC2; cl15369 243273000961 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 243273000962 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 243273000963 active site 243273000964 metal binding site [ion binding]; metal-binding site 243273000965 interdomain interaction site; other site 243273000966 glycyl-tRNA synthetase; Provisional; Region: PRK04173 243273000967 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 243273000968 active site 243273000969 motif 2; other site 243273000970 motif 3; other site 243273000971 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 243273000972 anticodon binding site; other site 243273000973 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 243273000974 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 243273000975 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 243273000976 cysteinyl-tRNA synthetase; Region: cysS; TIGR00435 243273000977 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 243273000978 active site 243273000979 HIGH motif; other site 243273000980 nucleotide binding site [chemical binding]; other site 243273000981 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 243273000982 KMSKS motif; other site 243273000983 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 243273000984 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 243273000985 DNA ligase, NAD-dependent; Region: dnlj; TIGR00575 243273000986 nucleotide binding pocket [chemical binding]; other site 243273000987 K-X-D-G motif; other site 243273000988 catalytic site [active] 243273000989 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 243273000990 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 243273000991 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; cl00038 243273000992 potential protein location (hypothetical protein MG_494 [Mycoplasma genitalium G37]) that overlaps RNA (tRNA-R) 243273000993 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 243273000994 peptide chain release factor 1; Region: prfA; TIGR00019 243273000995 RF-1 domain; Region: RF-1; cl02875 243273000996 RF-1 domain; Region: RF-1; cl02875 243273000997 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 243273000998 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 243273000999 S-adenosylmethionine binding site [chemical binding]; other site 243273001000 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 243273001001 Mycoplasma MG185/MG260 protein; Region: Lipoprotein_X; pfam03305 243273001002 Putative mycoplasma lipoprotein, C-terminal region; Region: Lipoprotein_10; pfam03202 243273001003 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 243273001004 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 243273001005 5'-3' exonuclease; Provisional; Region: PRK14976 243273001006 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 243273001007 active site 243273001008 metal binding site 1 [ion binding]; metal-binding site 243273001009 putative 5' ssDNA interaction site; other site 243273001010 metal binding site 3; metal-binding site 243273001011 metal binding site 2 [ion binding]; metal-binding site 243273001012 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 243273001013 putative DNA binding site [nucleotide binding]; other site 243273001014 putative metal binding site [ion binding]; other site 243273001015 formamidopyrimidine-DNA glycosylase (fpg); Region: fpg; TIGR00577 243273001016 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 243273001017 DNA binding site [nucleotide binding] 243273001018 catalytic residue [active] 243273001019 H2TH interface [polypeptide binding]; other site 243273001020 putative catalytic residues [active] 243273001021 turnover-facilitating residue; other site 243273001022 intercalation triad [nucleotide binding]; other site 243273001023 8OG recognition residue [nucleotide binding]; other site 243273001024 putative reading head residues; other site 243273001025 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 243273001026 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 243273001027 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 243273001028 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 243273001029 active site 243273001030 motif I; other site 243273001031 motif II; other site 243273001032 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 243273001033 dephospho-CoA kinase; Region: TIGR00152 243273001034 CoA-binding site [chemical binding]; other site 243273001035 ATP-binding [chemical binding]; other site 243273001036 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 243273001037 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 243273001038 active site 243273001039 motif I; other site 243273001040 motif II; other site 243273001041 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243273001042 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 243273001043 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 243273001044 HIGH motif; other site 243273001045 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 243273001046 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 243273001047 active site 243273001048 KMSKS motif; other site 243273001049 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 243273001050 tRNA binding surface [nucleotide binding]; other site 243273001051 anticodon binding site; other site 243273001052 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 243273001053 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 243273001054 Substrate-binding site [chemical binding]; other site 243273001055 Substrate specificity [chemical binding]; other site 243273001056 phosphodiesterase; Provisional; Region: PRK12704 243273001057 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 243273001058 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 243273001059 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 243273001060 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 243273001061 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243273001062 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 243273001063 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 243273001064 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 243273001065 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 243273001066 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 243273001067 E3 interaction surface; other site 243273001068 lipoyl attachment site [posttranslational modification]; other site 243273001069 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 243273001070 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 243273001071 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 243273001072 alpha subunit interface [polypeptide binding]; other site 243273001073 TPP binding site [chemical binding]; other site 243273001074 heterodimer interface [polypeptide binding]; other site 243273001075 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 243273001076 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 243273001077 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 243273001078 tetramer interface [polypeptide binding]; other site 243273001079 TPP-binding site [chemical binding]; other site 243273001080 heterodimer interface [polypeptide binding]; other site 243273001081 phosphorylation loop region [posttranslational modification] 243273001082 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 243273001083 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 243273001084 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 243273001085 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 243273001086 active site 243273001087 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 243273001088 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 243273001089 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 243273001090 synthetase active site [active] 243273001091 NTP binding site [chemical binding]; other site 243273001092 metal binding site [ion binding]; metal-binding site 243273001093 TIGR03545 family protein; Region: TIGR03545 243273001094 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 243273001095 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 243273001096 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 243273001097 prolyl-tRNA synthetase, family I; Region: proS_fam_I; TIGR00408 243273001098 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 formation of...; Region: ProRS_core_arch_euk; cd00778 243273001099 dimer interface [polypeptide binding]; other site 243273001100 motif 1; other site 243273001101 active site 243273001102 motif 2; other site 243273001103 motif 3; other site 243273001104 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 243273001105 anticodon binding site; other site 243273001106 Phosphopantetheine attachment site; Region: PP-binding; cl09936 243273001107 similar to hypothetical proteins found in other bacteria; reportedly expressed in PMID: 10712586; contains a frameshift 243273001108 High affinity transport system protein p37; Region: Mycoplasma_p37; pfam06646 243273001109 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 243273001110 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273001111 Walker A/P-loop; other site 243273001112 ATP binding site [chemical binding]; other site 243273001113 Q-loop/lid; other site 243273001114 ABC transporter signature motif; other site 243273001115 Walker B; other site 243273001116 D-loop; other site 243273001117 H-loop/switch region; other site 243273001118 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 243273001119 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 243273001120 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 includes...; Region: RuvC_resolvase; cl00243 243273001121 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 formation of...; Region: AlaRS_core; cd00673 243273001122 alanine--tRNA ligase; Region: alaS; TIGR00344 243273001123 motif 1; other site 243273001124 active site 243273001125 motif 2; other site 243273001126 motif 3; other site 243273001127 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 243273001128 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 243273001129 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 243273001130 active site 243273001131 catalytic site [active] 243273001132 metal binding site [ion binding]; metal-binding site 243273001133 dimer interface [polypeptide binding]; other site 243273001134 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 243273001135 putative substrate translocation pore; other site 243273001136 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 243273001137 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 243273001138 Ligand Binding Site [chemical binding]; other site 243273001139 Mg296 protein; Region: Mg296; pfam09644 243273001140 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 243273001141 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 243273001142 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 243273001143 P loop; other site 243273001144 GTP binding site [chemical binding]; other site 243273001145 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 243273001146 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 243273001147 Walker A/P-loop; other site 243273001148 ATP binding site [chemical binding]; other site 243273001149 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 243273001150 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 243273001151 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 243273001152 ABC transporter signature motif; other site 243273001153 Walker B; other site 243273001154 D-loop; other site 243273001155 H-loop/switch region; other site 243273001156 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 243273001157 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 243273001158 Phosphoglycerate kinase; Region: PGK; pfam00162 243273001159 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 243273001160 substrate binding site [chemical binding]; other site 243273001161 hinge regions; other site 243273001162 ADP binding site [chemical binding]; other site 243273001163 catalytic site [active] 243273001164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243273001165 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 243273001166 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 243273001167 Cobalt transport protein; Region: CbiQ; cl00463 243273001168 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 243273001169 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 243273001170 Walker A/P-loop; other site 243273001171 ATP binding site [chemical binding]; other site 243273001172 Q-loop/lid; other site 243273001173 ABC transporter signature motif; other site 243273001174 Walker B; other site 243273001175 D-loop; other site 243273001176 H-loop/switch region; other site 243273001177 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 243273001178 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 243273001179 Walker A/P-loop; other site 243273001180 ATP binding site [chemical binding]; other site 243273001181 Q-loop/lid; other site 243273001182 ABC transporter signature motif; other site 243273001183 Walker B; other site 243273001184 D-loop; other site 243273001185 H-loop/switch region; other site 243273001186 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 243273001187 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 243273001188 Protein of unknown function (DUF3713); Region: DUF3713; pfam12506 243273001189 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273001190 DEAD-like helicases superfamily; Region: DEXDc; smart00487 243273001191 ATP binding site [chemical binding]; other site 243273001192 putative Mg++ binding site [ion binding]; other site 243273001193 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 243273001194 nucleotide binding region [chemical binding]; other site 243273001195 ATP-binding site [chemical binding]; other site 243273001196 Protein of unknown function (DUF3713); Region: DUF3713; pfam12506 243273001197 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 243273001198 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 243273001199 ribosomal protein S4, bacterial/organelle type; Region: rpsD_bact; TIGR01017 243273001200 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 243273001201 RNA binding surface [nucleotide binding]; other site 243273001202 cytadherence high molecular weight protein 1 N-terminal region; Region: termin_org_HMW1; TIGR03836 243273001203 terminal organelle assembly protein TopJ; Region: termin_org_DnaJ; TIGR03835 243273001204 EAGR box; Region: EAGR_box; TIGR03834 243273001205 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 243273001206 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 243273001207 Competence protein; Region: Competence; cl00471 243273001208 cell division protein ZipA; Provisional; Region: PRK03427 243273001209 ribonuclease E; Reviewed; Region: rne; PRK10811 243273001210 Cytadhesin P30/P32; Region: Cytadhesin_P30; pfam07271 243273001211 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 243273001212 Cation transport protein; Region: TrkH; cl10514 243273001213 Cation transport protein; Region: TrkH; cl10514 243273001214 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 243273001215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243273001216 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 243273001217 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 243273001218 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 243273001219 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 243273001220 active site 243273001221 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 243273001222 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 243273001223 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 243273001224 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 243273001225 V-type ATP synthase subunit I; Validated; Region: PRK05771 243273001226 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 243273001227 GTP-binding protein Der; Reviewed; Region: PRK00093 243273001228 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 243273001229 G1 box; other site 243273001230 GTP/Mg2+ binding site [chemical binding]; other site 243273001231 Switch I region; other site 243273001232 G2 box; other site 243273001233 Switch II region; other site 243273001234 G3 box; other site 243273001235 G4 box; other site 243273001236 G5 box; other site 243273001237 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 243273001238 G1 box; other site 243273001239 GTP/Mg2+ binding site [chemical binding]; other site 243273001240 Switch I region; other site 243273001241 G2 box; other site 243273001242 G3 box; other site 243273001243 Switch II region; other site 243273001244 G4 box; other site 243273001245 G5 box; other site 243273001246 cytidylate kinase; Region: cmk; TIGR00017 243273001247 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 243273001248 CMP-binding site; other site 243273001249 The sites determining sugar specificity; other site 243273001250 Transcriptional regulator; Region: Transcrip_reg; cl00361 243273001251 valyl-tRNA synthetase; Region: valS; TIGR00422 243273001252 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 243273001253 active site 243273001254 HIGH motif; other site 243273001255 nucleotide binding site [chemical binding]; other site 243273001256 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 243273001257 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 243273001258 active site 243273001259 KMSKS motif; other site 243273001260 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 243273001261 tRNA binding surface [nucleotide binding]; other site 243273001262 anticodon binding site; other site 243273001263 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 243273001264 Predicted GTPase [General function prediction only]; Region: COG0218 243273001265 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 243273001266 G1 box; other site 243273001267 GTP/Mg2+ binding site [chemical binding]; other site 243273001268 Switch I region; other site 243273001269 G2 box; other site 243273001270 G3 box; other site 243273001271 Switch II region; other site 243273001272 G4 box; other site 243273001273 G5 box; other site 243273001274 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 243273001275 putative glycosyl transferase; Provisional; Region: PRK10073 243273001276 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 243273001277 active site 243273001278 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 243273001279 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 243273001280 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243273001281 catalytic residue [active] 243273001282 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 243273001283 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 243273001284 trimerization site [polypeptide binding]; other site 243273001285 active site 243273001286 Protein of unknown function (DUF3713); Region: DUF3713; pfam12506 243273001287 recombinase A; Provisional; Region: recA; PRK09354 243273001288 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273001289 Walker A motif; other site 243273001290 ATP binding site [chemical binding]; other site 243273001291 Walker B motif; other site 243273001292 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 243273001293 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 243273001294 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 243273001295 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 243273001296 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 243273001297 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 243273001298 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 243273001299 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 243273001300 G-loop; other site 243273001301 DNA binding site [nucleotide binding] 243273001302 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 243273001303 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; cl04593 243273001304 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; cl04593 243273001305 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 243273001306 RPB10 interaction site [polypeptide binding]; other site 243273001307 RPB11 interaction site [polypeptide binding]; other site 243273001308 RPB3 interaction site [polypeptide binding]; other site 243273001309 RPB12 interaction site [polypeptide binding]; other site 243273001310 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; cl04593 243273001311 RPB1 interaction site [polypeptide binding]; other site 243273001312 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243273001313 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 243273001314 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 243273001315 nucleophilic elbow; other site 243273001316 catalytic triad; other site 243273001317 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 243273001318 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 243273001319 active site 243273001320 HIGH motif; other site 243273001321 nucleotide binding site [chemical binding]; other site 243273001322 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 243273001323 active site 243273001324 KMSKS motif; other site 243273001325 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 243273001326 tRNA binding surface [nucleotide binding]; other site 243273001327 anticodon binding site; other site 243273001328 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 243273001329 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 243273001330 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 243273001331 S-adenosylmethionine binding site [chemical binding]; other site 243273001332 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 243273001333 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 243273001334 dimer interface [polypeptide binding]; other site 243273001335 substrate binding site [chemical binding]; other site 243273001336 metal binding sites [ion binding]; metal-binding site 243273001337 Recombination protein U; Region: RecU; cl01314 243273001338 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 243273001339 Domain of unknown function (DUF1951); Region: DUF1951; pfam09188 243273001340 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 243273001341 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 243273001342 Walker A motif; other site 243273001343 ATP binding site [chemical binding]; other site 243273001344 Walker B motif; other site 243273001345 arginine finger; other site 243273001346 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 243273001347 Walker A motif; other site 243273001348 ATP binding site [chemical binding]; other site 243273001349 Walker B motif; other site 243273001350 arginine finger; other site 243273001351 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 243273001352 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 243273001353 Phosphotransferase enzyme family; Region: APH; pfam01636 243273001354 active site 243273001355 substrate binding site [chemical binding]; other site 243273001356 ATP binding site [chemical binding]; other site 243273001357 acetate kinase; Region: ackA; TIGR00016 243273001358 Acetokinase family; Region: Acetate_kinase; cl01029 243273001359 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 243273001360 RuvA N terminal domain; Region: RuvA_N; pfam01330 243273001361 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 243273001362 Holliday junction DNA helicase, RuvB subunit; Region: ruvB; TIGR00635 243273001363 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 243273001364 Walker A motif; other site 243273001365 ATP binding site [chemical binding]; other site 243273001366 Walker B motif; other site 243273001367 arginine finger; other site 243273001368 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 243273001369 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 243273001370 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 243273001371 active site 243273001372 DNA binding site [nucleotide binding] 243273001373 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 243273001374 23S rRNA interface [nucleotide binding]; other site 243273001375 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 243273001376 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 243273001377 core dimer interface [polypeptide binding]; other site 243273001378 peripheral dimer interface [polypeptide binding]; other site 243273001379 L10 interface [polypeptide binding]; other site 243273001380 L11 interface [polypeptide binding]; other site 243273001381 putative EF-Tu interaction site [polypeptide binding]; other site 243273001382 putative EF-G interaction site [polypeptide binding]; other site 243273001383 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 243273001384 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 243273001385 methionyl-tRNA formyltransferase; Region: fmt; TIGR00460 243273001386 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 243273001387 putative active site [active] 243273001388 substrate binding site [chemical binding]; other site 243273001389 putative cosubstrate binding site; other site 243273001390 catalytic site [active] 243273001391 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 243273001392 substrate binding site [chemical binding]; other site 243273001393 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 243273001394 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 243273001395 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 243273001396 dimerization interface [polypeptide binding]; other site 243273001397 active site 243273001398 metal binding site [ion binding]; metal-binding site 243273001399 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 243273001400 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 243273001401 DAK2 domain; Region: Dak2; cl03685 243273001402 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 243273001403 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 243273001404 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 243273001405 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 243273001406 active site 243273001407 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 243273001408 DHH family; Region: DHH; pfam01368 243273001409 DHHA1 domain; Region: DHHA1; pfam02272 243273001410 tRNA sulfurtransferase ThiI; Region: TIGR00342 243273001411 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 243273001412 Ligand Binding Site [chemical binding]; other site 243273001413 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 243273001414 threonyl-tRNA synthetase; Region: thrS; TIGR00418 243273001415 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 243273001416 active site 243273001417 dimer interface [polypeptide binding]; other site 243273001418 motif 1; other site 243273001419 motif 2; other site 243273001420 motif 3; other site 243273001421 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 243273001422 anticodon binding site; other site 243273001423 Protein of unknown function (DUF3217); Region: DUF3217; pfam11506 243273001424 arginyl-tRNA synthetase; Region: argS; TIGR00456 243273001425 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 243273001426 active site 243273001427 HIGH motif; other site 243273001428 KMSK motif region; other site 243273001429 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 243273001430 tRNA binding surface [nucleotide binding]; other site 243273001431 anticodon binding site; other site 243273001432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243273001433 glucose-inhibited division protein A; Region: gidA; TIGR00136 243273001434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243273001435 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 243273001436 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; cl16911 243273001437 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 243273001438 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 243273001439 ATP-binding site [chemical binding]; other site 243273001440 Sugar specificity; other site 243273001441 Pyrimidine base specificity; other site 243273001442 NAD+ synthetase; Region: nadE; TIGR00552 243273001443 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 243273001444 homodimer interface [polypeptide binding]; other site 243273001445 NAD binding pocket [chemical binding]; other site 243273001446 ATP binding pocket [chemical binding]; other site 243273001447 Mg binding site [ion binding]; other site 243273001448 active-site loop [active] 243273001449 GTP1/OBG; Region: GTP1_OBG; pfam01018 243273001450 GTPase CgtA; Reviewed; Region: obgE; PRK12297 243273001451 Obg GTPase; Region: Obg; cd01898 243273001452 G1 box; other site 243273001453 GTP/Mg2+ binding site [chemical binding]; other site 243273001454 Switch I region; other site 243273001455 G2 box; other site 243273001456 G3 box; other site 243273001457 Switch II region; other site 243273001458 G4 box; other site 243273001459 G5 box; other site 243273001460 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 243273001461 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 243273001462 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 243273001463 active site 243273001464 catalytic site [active] 243273001465 EAGR box; Region: EAGR_box; TIGR03834 243273001466 EAGR box; Region: EAGR_box; TIGR03834 243273001467 cell division protein ZipA; Provisional; Region: PRK03427 243273001468 terminal organelle assembly protein TopJ; Region: termin_org_DnaJ; TIGR03835 243273001469 EAGR box; Region: EAGR_box; TIGR03834 243273001470 EAGR box; Region: EAGR_box; TIGR03834 243273001471 GTP-binding protein Era; Region: era; TIGR00436 243273001472 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 243273001473 G1 box; other site 243273001474 GTP/Mg2+ binding site [chemical binding]; other site 243273001475 Switch I region; other site 243273001476 G2 box; other site 243273001477 Switch II region; other site 243273001478 G3 box; other site 243273001479 G4 box; other site 243273001480 G5 box; other site 243273001481 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 243273001482 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 243273001483 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 243273001484 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39E; cd02424 243273001485 putative active site [active] 243273001486 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243273001487 Walker A/P-loop; other site 243273001488 ATP binding site [chemical binding]; other site 243273001489 Q-loop/lid; other site 243273001490 ABC transporter signature motif; other site 243273001491 Walker B; other site 243273001492 D-loop; other site 243273001493 H-loop/switch region; other site 243273001494 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 243273001495 interface (dimer of trimers) [polypeptide binding]; other site 243273001496 Substrate-binding/catalytic site; other site 243273001497 Zn-binding sites [ion binding]; other site 243273001498 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 243273001499 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 243273001500 ring oligomerisation interface [polypeptide binding]; other site 243273001501 ATP/Mg binding site [chemical binding]; other site 243273001502 stacking interactions; other site 243273001503 hinge regions; other site 243273001504 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 243273001505 oligomerisation interface [polypeptide binding]; other site 243273001506 mobile loop; other site 243273001507 roof hairpin; other site 243273001508 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 243273001509 dimer interface [polypeptide binding]; other site 243273001510 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 243273001511 active site 243273001512 glycine-pyridoxal phosphate binding site [chemical binding]; other site 243273001513 folate binding site [chemical binding]; other site 243273001514 Putative peptidase (DUF31); Region: DUF31; pfam01732 243273001515 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 243273001516 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 243273001517 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00539 243273001518 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 243273001519 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 243273001520 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 243273001521 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 243273001522 alpha subunit interaction interface [polypeptide binding]; other site 243273001523 Walker A motif; other site 243273001524 ATP binding site [chemical binding]; other site 243273001525 Walker B motif; other site 243273001526 inhibitor binding site; inhibition site 243273001527 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 243273001528 ATP synthase; Region: ATP-synt; cl00365 243273001529 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 243273001530 proton translocating ATP synthase, F1 alpha subunit; Region: atpA; TIGR00962 243273001531 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 243273001532 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 243273001533 beta subunit interaction interface [polypeptide binding]; other site 243273001534 Walker A motif; other site 243273001535 ATP binding site [chemical binding]; other site 243273001536 Walker B motif; other site 243273001537 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 243273001538 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 243273001539 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 243273001540 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 243273001541 ATP synthase subunit C; Region: ATP-synt_C; cl00466 243273001542 ATP synthase A chain; Region: ATP-synt_A; cl00413 243273001543 enolase; Provisional; Region: eno; PRK00077 243273001544 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 243273001545 dimer interface [polypeptide binding]; other site 243273001546 metal binding site [ion binding]; metal-binding site 243273001547 substrate binding pocket [chemical binding]; other site 243273001548 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 243273001549 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 243273001550 PhoU domain; Region: PhoU; pfam01895 243273001551 PhoU domain; Region: PhoU; pfam01895 243273001552 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 243273001553 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 243273001554 Walker A/P-loop; other site 243273001555 ATP binding site [chemical binding]; other site 243273001556 Q-loop/lid; other site 243273001557 ABC transporter signature motif; other site 243273001558 Walker B; other site 243273001559 D-loop; other site 243273001560 H-loop/switch region; other site 243273001561 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 243273001562 dimer interface [polypeptide binding]; other site 243273001563 conserved gate region; other site 243273001564 putative PBP binding loops; other site 243273001565 ABC-ATPase subunit interface; other site 243273001566 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 243273001567 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 243273001568 dimer interface [polypeptide binding]; other site 243273001569 conserved gate region; other site 243273001570 putative PBP binding loops; other site 243273001571 ABC-ATPase subunit interface; other site 243273001572 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 243273001573 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 243273001574 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 243273001575 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 243273001576 23S rRNA interface [nucleotide binding]; other site 243273001577 L3 interface [polypeptide binding]; other site 243273001578 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05896 243273001579 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 243273001580 Walker A motif; other site 243273001581 ATP binding site [chemical binding]; other site 243273001582 Walker B motif; other site 243273001583 arginine finger; other site 243273001584 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 243273001585 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 243273001586 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 243273001587 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 243273001588 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 243273001589 conserved hypothetical protein; Region: MG423; TIGR00649 243273001590 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 243273001591 16S/18S rRNA binding site [nucleotide binding]; other site 243273001592 S13e-L30e interaction site [polypeptide binding]; other site 243273001593 25S rRNA binding site [nucleotide binding]; other site 243273001594 helicase 45; Provisional; Region: PTZ00424 243273001595 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 243273001596 ATP binding site [chemical binding]; other site 243273001597 Mg++ binding site [ion binding]; other site 243273001598 motif III; other site 243273001599 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 243273001600 nucleotide binding region [chemical binding]; other site 243273001601 ATP-binding site [chemical binding]; other site 243273001602 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 243273001603 OsmC-like protein; Region: OsmC; cl00767 243273001604 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 243273001605 Helix-turn-helix domains; Region: HTH; cl00088 243273001606 phosphoenolpyruvate-protein phosphotransferase; Region: PTS_I_fam; TIGR01417 243273001607 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 243273001608 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 243273001609 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 243273001610 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 243273001611 Sulfatase; Region: Sulfatase; cl10460 243273001612 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 243273001613 substrate binding site [chemical binding]; other site 243273001614 dimer interface [polypeptide binding]; other site 243273001615 catalytic triad [active] 243273001616 Uncharacterized conserved protein [Function unknown]; Region: COG1284 243273001617 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 243273001618 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 243273001619 translation elongation factor Ts; Region: tsf; TIGR00116 243273001620 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 243273001621 Elongation factor TS; Region: EF_TS; pfam00889 243273001622 Elongation factor TS; Region: EF_TS; pfam00889 243273001623 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 243273001624 putative nucleotide binding site [chemical binding]; other site 243273001625 uridine monophosphate binding site [chemical binding]; other site 243273001626 homohexameric interface [polypeptide binding]; other site 243273001627 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 round of...; Region: RRF; cd00520 243273001628 ribosome recycling factor; Reviewed; Region: frr; PRK00083 243273001629 hinge region; other site 243273001630 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 243273001631 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 243273001632 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 243273001633 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 243273001634 Lipoprotein; Region: Lipoprotein_3; pfam00938 243273001635 Lipoprotein; Region: Lipoprotein_3; pfam00938 243273001636 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 243273001637 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 243273001638 GTP/Mg2+ binding site [chemical binding]; other site 243273001639 G4 box; other site 243273001640 G5 box; other site 243273001641 G1 box; other site 243273001642 Switch I region; other site 243273001643 G2 box; other site 243273001644 G3 box; other site 243273001645 Switch II region; other site 243273001646 Uncharacterized conserved protein [Function unknown]; Region: COG1284 243273001647 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 243273001648 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 243273001649 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 243273001650 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 243273001651 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 243273001652 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 243273001653 MatE; Region: MatE; cl10513 243273001654 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 243273001655 SelR domain; Region: SelR; pfam01641 243273001656 similar to hypothetical proteins from other bacteria; contains a frameshift 243273001657 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 243273001658 elongation factor Tu; Reviewed; Region: PRK00049 243273001659 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 243273001660 G1 box; other site 243273001661 GEF interaction site [polypeptide binding]; other site 243273001662 GTP/Mg2+ binding site [chemical binding]; other site 243273001663 Switch I region; other site 243273001664 G2 box; other site 243273001665 G3 box; other site 243273001666 Switch II region; other site 243273001667 G4 box; other site 243273001668 G5 box; other site 243273001669 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 243273001670 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 243273001671 Antibiotic Binding Site [chemical binding]; other site 243273001672 Protein of unknown function (DUF1600); Region: DUF1600; pfam07667 243273001673 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 243273001674 active site 243273001675 tetramer interface; other site 243273001676 OsmC-like protein; Region: OsmC; cl00767 243273001677 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 243273001678 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 243273001679 active site 243273001680 nucleotide binding site [chemical binding]; other site 243273001681 HIGH motif; other site 243273001682 KMSKS motif; other site 243273001683 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 243273001684 RNA binding surface [nucleotide binding]; other site 243273001685 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 243273001686 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 243273001687 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 243273001688 Walker A motif; other site 243273001689 ATP binding site [chemical binding]; other site 243273001690 Walker B motif; other site 243273001691 arginine finger; other site 243273001692 Peptidase family M41; Region: Peptidase_M41; pfam01434 243273001693 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 243273001694 active site 243273001695 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 243273001696 homotrimer interaction site [polypeptide binding]; other site 243273001697 zinc binding site [ion binding]; other site 243273001698 CDP-binding sites; other site 243273001699 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 243273001700 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 243273001701 NAD binding site [chemical binding]; other site 243273001702 dimer interface [polypeptide binding]; other site 243273001703 tetramer (dimer of dimers) interface [polypeptide binding]; other site 243273001704 substrate binding site [chemical binding]; other site 243273001705 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 243273001706 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243273001707 Zn2+ binding site [ion binding]; other site 243273001708 Mg2+ binding site [ion binding]; other site 243273001709 glutamyl-tRNA synthetase, bacterial family; Region: gltX_bact; TIGR00464 243273001710 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 243273001711 HIGH motif; other site 243273001712 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 243273001713 active site 243273001714 KMSKS motif; other site 243273001715 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; cl16911 243273001716 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 243273001717 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 243273001718 Ribonuclease P; Region: Ribonuclease_P; cl00457 243273001719 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 243273001720 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 243273001721 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 243273001722 Walker A/P-loop; other site 243273001723 ATP binding site [chemical binding]; other site 243273001724 Q-loop/lid; other site 243273001725 ABC transporter signature motif; other site 243273001726 Walker B; other site 243273001727 D-loop; other site 243273001728 H-loop/switch region; other site 243273001729 FtsX-like permease family; Region: FtsX; cl15850 243273001730 FtsX-like permease family; Region: FtsX; cl15850 243273001731 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 243273001732 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 243273001733 Walker A/P-loop; other site 243273001734 ATP binding site [chemical binding]; other site 243273001735 Q-loop/lid; other site 243273001736 ABC transporter signature motif; other site 243273001737 Walker B; other site 243273001738 D-loop; other site 243273001739 H-loop/switch region; other site 243273001740 DnaA N-terminal domain; Region: DnaA_N; pfam11638 243273001741 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 243273001742 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 243273001743 Walker A motif; other site 243273001744 ATP binding site [chemical binding]; other site 243273001745 Walker B motif; other site 243273001746 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 243273001747 DnaA box-binding interface [nucleotide binding]; other site 243273001748 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 243273001749 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 243273001750 P-loop; other site 243273001751 Magnesium ion binding site [ion binding]; other site 243273001752 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 243273001753 Magnesium ion binding site [ion binding]; other site