-- dump date 20140619_140701 -- class Genbank::misc_feature -- table misc_feature_note -- id note 265311000001 chromosomal replication initiation protein; Provisional; Region: dnaA; PRK14087 265311000002 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 265311000003 Walker A motif; other site 265311000004 ATP binding site [chemical binding]; other site 265311000005 Walker B motif; other site 265311000006 arginine finger; other site 265311000007 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 265311000008 DnaA box-binding interface [nucleotide binding]; other site 265311000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 265311000010 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 265311000011 putative DNA binding surface [nucleotide binding]; other site 265311000012 dimer interface [polypeptide binding]; other site 265311000013 beta-clamp/clamp loader binding surface; other site 265311000014 beta-clamp/translesion DNA polymerase binding surface; other site 265311000015 MreB/Mbl protein; Region: MreB_Mbl; pfam06723 265311000016 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 265311000017 nucleotide binding site [chemical binding]; other site 265311000018 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 265311000019 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 265311000020 active site 265311000021 metal binding site [ion binding]; metal-binding site 265311000022 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 265311000023 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 265311000024 S-adenosylmethionine binding site [chemical binding]; other site 265311000025 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 265311000026 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 265311000027 ATP binding site [chemical binding]; other site 265311000028 Mg2+ binding site [ion binding]; other site 265311000029 G-X-G motif; other site 265311000030 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 265311000031 anchoring element; other site 265311000032 dimer interface [polypeptide binding]; other site 265311000033 ATP binding site [chemical binding]; other site 265311000034 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 265311000035 active site 265311000036 putative metal-binding site [ion binding]; other site 265311000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 265311000038 DNA gyrase subunit A; Validated; Region: PRK05560 265311000039 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 265311000040 CAP-like domain; other site 265311000041 active site 265311000042 primary dimer interface [polypeptide binding]; other site 265311000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 265311000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 265311000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 265311000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 265311000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 265311000048 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 265311000049 HPr interaction site; other site 265311000050 glycerol kinase (GK) interaction site [polypeptide binding]; other site 265311000051 active site 265311000052 phosphorylation site [posttranslational modification] 265311000053 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 265311000054 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; cl00164 265311000055 active site turn [active] 265311000056 phosphorylation site [posttranslational modification] 265311000057 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 265311000058 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 265311000059 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 265311000060 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 265311000061 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 265311000062 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 265311000063 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 265311000064 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 265311000065 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 265311000066 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 265311000067 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 265311000068 nucleotide binding site [chemical binding]; other site 265311000069 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 265311000070 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 265311000071 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 265311000072 trmE is a tRNA modification GTPase; Region: trmE; cd04164 265311000073 G1 box; other site 265311000074 GTP/Mg2+ binding site [chemical binding]; other site 265311000075 Switch I region; other site 265311000076 G2 box; other site 265311000077 Switch II region; other site 265311000078 G3 box; other site 265311000079 G4 box; other site 265311000080 G5 box; other site 265311000081 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 265311000082 Predicted membrane protein [Function unknown]; Region: COG1288 265311000083 Amino acid permease; Region: AA_permease_2; pfam13520 265311000084 seryl-tRNA synthetase; Provisional; Region: PRK05431 265311000085 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 265311000086 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 265311000087 dimer interface [polypeptide binding]; other site 265311000088 active site 265311000089 motif 1; other site 265311000090 motif 2; other site 265311000091 motif 3; other site 265311000092 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 265311000093 Hsp33 protein; Region: HSP33; pfam01430 265311000094 dimerization interface [polypeptide binding]; other site 265311000095 domain crossover interface; other site 265311000096 redox-dependent activation switch; other site 265311000097 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 265311000098 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 265311000099 Walker A/P-loop; other site 265311000100 ATP binding site [chemical binding]; other site 265311000101 Q-loop/lid; other site 265311000102 ABC transporter signature motif; other site 265311000103 Walker B; other site 265311000104 D-loop; other site 265311000105 H-loop/switch region; other site 265311000106 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 265311000107 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 265311000108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 265311000109 Walker A/P-loop; other site 265311000110 ATP binding site [chemical binding]; other site 265311000111 Q-loop/lid; other site 265311000112 AAA domain; Region: AAA_13; pfam13166 265311000113 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 265311000114 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 265311000115 ABC transporter signature motif; other site 265311000116 Walker B; other site 265311000117 D-loop; other site 265311000118 H-loop/switch region; other site 265311000119 TOBE domain; Region: TOBE_2; pfam08402 265311000120 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 265311000121 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 265311000122 dimer interface [polypeptide binding]; other site 265311000123 conserved gate region; other site 265311000124 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 265311000125 ABC-ATPase subunit interface; other site 265311000126 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 265311000127 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 265311000128 dimer interface [polypeptide binding]; other site 265311000129 conserved gate region; other site 265311000130 putative PBP binding loops; other site 265311000131 ABC-ATPase subunit interface; other site 265311000132 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 265311000133 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 265311000134 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 265311000135 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 265311000136 FMN binding site [chemical binding]; other site 265311000137 active site 265311000138 catalytic residues [active] 265311000139 substrate binding site [chemical binding]; other site 265311000140 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 265311000141 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 265311000142 dimer interface [polypeptide binding]; other site 265311000143 putative anticodon binding site; other site 265311000144 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 265311000145 motif 1; other site 265311000146 active site 265311000147 motif 2; other site 265311000148 motif 3; other site 265311000149 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 265311000150 active site 265311000151 trimer interface [polypeptide binding]; other site 265311000152 allosteric site; other site 265311000153 active site lid [active] 265311000154 hexamer (dimer of trimers) interface [polypeptide binding]; other site 265311000155 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 265311000156 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 265311000157 HPr interaction site; other site 265311000158 glycerol kinase (GK) interaction site [polypeptide binding]; other site 265311000159 active site 265311000160 phosphorylation site [posttranslational modification] 265311000161 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 265311000162 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 265311000163 active site turn [active] 265311000164 phosphorylation site [posttranslational modification] 265311000165 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 265311000166 aromatic cluster surface protein; Region: aro_clust_Mycop; TIGR04313 265311000167 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 265311000168 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 265311000169 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 265311000170 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 265311000171 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 265311000172 active site 265311000173 HIGH motif; other site 265311000174 KMSKS motif; other site 265311000175 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 265311000176 tRNA binding surface [nucleotide binding]; other site 265311000177 anticodon binding site; other site 265311000178 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 265311000179 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 265311000180 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 265311000181 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 265311000182 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 265311000183 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 265311000184 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 265311000185 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 265311000186 tetramer interface [polypeptide binding]; other site 265311000187 TPP-binding site [chemical binding]; other site 265311000188 heterodimer interface [polypeptide binding]; other site 265311000189 phosphorylation loop region [posttranslational modification] 265311000190 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 265311000191 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 265311000192 alpha subunit interface [polypeptide binding]; other site 265311000193 TPP binding site [chemical binding]; other site 265311000194 heterodimer interface [polypeptide binding]; other site 265311000195 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 265311000196 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 265311000197 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 265311000198 E3 interaction surface; other site 265311000199 lipoyl attachment site [posttranslational modification]; other site 265311000200 e3 binding domain; Region: E3_binding; pfam02817 265311000201 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 265311000202 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 265311000203 E3 interaction surface; other site 265311000204 lipoyl attachment site [posttranslational modification]; other site 265311000205 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 265311000206 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 265311000207 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 265311000208 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 265311000209 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 265311000210 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 265311000211 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 265311000212 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 265311000213 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 265311000214 azoreductase; Reviewed; Region: PRK01355 265311000215 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 265311000216 active site 265311000217 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 265311000218 active site 265311000219 methionine sulfoxide reductase A; Provisional; Region: PRK14054 265311000220 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 265311000221 dimerization interface [polypeptide binding]; other site 265311000222 putative DNA binding site [nucleotide binding]; other site 265311000223 putative Zn2+ binding site [ion binding]; other site 265311000224 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 265311000225 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 265311000226 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 265311000227 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 265311000228 Walker A/P-loop; other site 265311000229 ATP binding site [chemical binding]; other site 265311000230 Q-loop/lid; other site 265311000231 ABC transporter signature motif; other site 265311000232 ABC transporter; Region: ABC_tran_2; pfam12848 265311000233 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 265311000234 5'-3' exonuclease; Region: 53EXOc; smart00475 265311000235 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 265311000236 active site 265311000237 metal binding site 1 [ion binding]; metal-binding site 265311000238 putative 5' ssDNA interaction site; other site 265311000239 metal binding site 3; metal-binding site 265311000240 metal binding site 2 [ion binding]; metal-binding site 265311000241 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 265311000242 putative DNA binding site [nucleotide binding]; other site 265311000243 putative metal binding site [ion binding]; other site 265311000244 Uncharacterized conserved protein [Function unknown]; Region: COG1739 265311000245 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 265311000246 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12903 265311000247 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 265311000248 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 265311000249 nucleotide binding region [chemical binding]; other site 265311000250 ATP-binding site [chemical binding]; other site 265311000251 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 265311000252 excinuclease ABC subunit B; Provisional; Region: PRK05298 265311000253 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 265311000254 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 265311000255 nucleotide binding region [chemical binding]; other site 265311000256 ATP-binding site [chemical binding]; other site 265311000257 Ultra-violet resistance protein B; Region: UvrB; pfam12344 265311000258 UvrB/uvrC motif; Region: UVR; pfam02151 265311000259 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 265311000260 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 265311000261 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 265311000262 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 265311000263 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 265311000264 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 265311000265 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 265311000266 Protein of unknown function (DUF3816); Region: DUF3816; cl17272 265311000267 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 265311000268 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 265311000269 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 265311000270 Hpr binding site; other site 265311000271 active site 265311000272 homohexamer subunit interaction site [polypeptide binding]; other site 265311000273 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 265311000274 Protein of unknown function (DUF1410); Region: DUF1410; pfam07198 265311000275 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 265311000276 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 265311000277 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 265311000278 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 265311000279 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 265311000280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 265311000281 WhiA N-terminal LAGLIDADG-like domain; Region: WhiA_N; pfam10298 265311000282 WhiA LAGLIDADG-like domain; Region: LAGLIDADG_WhiA; pfam14527 265311000283 WhiA C-terminal HTH domain; Region: HTH_WhiA; pfam02650 265311000284 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 265311000285 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 265311000286 non-specific DNA binding site [nucleotide binding]; other site 265311000287 salt bridge; other site 265311000288 sequence-specific DNA binding site [nucleotide binding]; other site 265311000289 Preprotein translocase SecG subunit; Region: SecG; cl09123 265311000290 FtsX-like permease family; Region: FtsX; pfam02687 265311000291 FtsX-like permease family; Region: FtsX; pfam02687 265311000292 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 265311000293 interface (dimer of trimers) [polypeptide binding]; other site 265311000294 Substrate-binding/catalytic site; other site 265311000295 Zn-binding sites [ion binding]; other site 265311000296 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 265311000297 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 265311000298 interface (dimer of trimers) [polypeptide binding]; other site 265311000299 Substrate-binding/catalytic site; other site 265311000300 Zn-binding sites [ion binding]; other site 265311000301 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 265311000302 interface (dimer of trimers) [polypeptide binding]; other site 265311000303 Substrate-binding/catalytic site; other site 265311000304 Zn-binding sites [ion binding]; other site 265311000305 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 265311000306 GDP-binding site [chemical binding]; other site 265311000307 ACT binding site; other site 265311000308 IMP binding site; other site 265311000309 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 265311000310 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 265311000311 tetramer interface [polypeptide binding]; other site 265311000312 active site 265311000313 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 265311000314 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 265311000315 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 265311000316 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 265311000317 active site 265311000318 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 265311000319 putative active site [active] 265311000320 catalytic residue [active] 265311000321 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 265311000322 S-adenosylmethionine binding site [chemical binding]; other site 265311000323 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 265311000324 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 265311000325 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 265311000326 dimer interface [polypeptide binding]; other site 265311000327 ssDNA binding site [nucleotide binding]; other site 265311000328 tetramer (dimer of dimers) interface [polypeptide binding]; other site 265311000329 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 265311000330 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 265311000331 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 265311000332 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 265311000333 replicative DNA helicase; Region: DnaB; TIGR00665 265311000334 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 265311000335 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 265311000336 Walker A motif; other site 265311000337 ATP binding site [chemical binding]; other site 265311000338 Walker B motif; other site 265311000339 DNA binding loops [nucleotide binding] 265311000340 hypothetical protein; Provisional; Region: PRK09609 265311000341 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 265311000342 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 265311000343 active site 265311000344 HIGH motif; other site 265311000345 KMSKS motif; other site 265311000346 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 265311000347 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 265311000348 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 265311000349 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 265311000350 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 265311000351 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 265311000352 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 265311000353 putative homodimer interface [polypeptide binding]; other site 265311000354 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 265311000355 heterodimer interface [polypeptide binding]; other site 265311000356 homodimer interface [polypeptide binding]; other site 265311000357 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 265311000358 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 265311000359 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 265311000360 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 265311000361 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 265311000362 dimer interface [polypeptide binding]; other site 265311000363 conserved gate region; other site 265311000364 putative PBP binding loops; other site 265311000365 ABC-ATPase subunit interface; other site 265311000366 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 265311000367 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 265311000368 dimer interface [polypeptide binding]; other site 265311000369 conserved gate region; other site 265311000370 putative PBP binding loops; other site 265311000371 ABC-ATPase subunit interface; other site 265311000372 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 265311000373 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 265311000374 Walker A/P-loop; other site 265311000375 ATP binding site [chemical binding]; other site 265311000376 Q-loop/lid; other site 265311000377 ABC transporter signature motif; other site 265311000378 Walker B; other site 265311000379 D-loop; other site 265311000380 H-loop/switch region; other site 265311000381 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 265311000382 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 265311000383 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 265311000384 Walker A/P-loop; other site 265311000385 ATP binding site [chemical binding]; other site 265311000386 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 265311000387 Q-loop/lid; other site 265311000388 ABC transporter signature motif; other site 265311000389 Walker B; other site 265311000390 D-loop; other site 265311000391 H-loop/switch region; other site 265311000392 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 265311000393 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 265311000394 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 265311000395 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 265311000396 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 265311000397 Putative lysophospholipase; Region: Hydrolase_4; cl19140 265311000398 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 265311000399 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 265311000400 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 265311000401 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 265311000402 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 265311000403 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 265311000404 GIY-YIG motif/motif A; other site 265311000405 active site 265311000406 catalytic site [active] 265311000407 putative DNA binding site [nucleotide binding]; other site 265311000408 metal binding site [ion binding]; metal-binding site 265311000409 UvrB/uvrC motif; Region: UVR; pfam02151 265311000410 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 265311000411 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 265311000412 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 265311000413 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 265311000414 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 265311000415 putative SAM binding site [chemical binding]; other site 265311000416 putative homodimer interface [polypeptide binding]; other site 265311000417 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 265311000418 active site residue [active] 265311000419 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 265311000420 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 265311000421 dimer interface [polypeptide binding]; other site 265311000422 active site 265311000423 glycine-pyridoxal phosphate binding site [chemical binding]; other site 265311000424 folate binding site [chemical binding]; other site 265311000425 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 265311000426 active site 265311000427 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 265311000428 ATP synthase subunit C; Region: ATP-synt_C; cl00466 265311000429 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 265311000430 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 265311000431 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13436 265311000432 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 265311000433 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 265311000434 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 265311000435 beta subunit interaction interface [polypeptide binding]; other site 265311000436 Walker A motif; other site 265311000437 ATP binding site [chemical binding]; other site 265311000438 Walker B motif; other site 265311000439 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 265311000440 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 265311000441 core domain interface [polypeptide binding]; other site 265311000442 delta subunit interface [polypeptide binding]; other site 265311000443 epsilon subunit interface [polypeptide binding]; other site 265311000444 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 265311000445 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 265311000446 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 265311000447 alpha subunit interaction interface [polypeptide binding]; other site 265311000448 Walker A motif; other site 265311000449 ATP binding site [chemical binding]; other site 265311000450 Walker B motif; other site 265311000451 inhibitor binding site; inhibition site 265311000452 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 265311000453 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; pfam02823 265311000454 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 265311000455 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 265311000456 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 265311000457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 265311000458 Walker A/P-loop; other site 265311000459 ATP binding site [chemical binding]; other site 265311000460 Q-loop/lid; other site 265311000461 ABC transporter signature motif; other site 265311000462 Walker B; other site 265311000463 D-loop; other site 265311000464 H-loop/switch region; other site 265311000465 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 265311000466 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 265311000467 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 265311000468 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 265311000469 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 265311000470 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 265311000471 active site 265311000472 substrate binding site [chemical binding]; other site 265311000473 metal binding site [ion binding]; metal-binding site 265311000474 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 265311000475 intersubunit interface [polypeptide binding]; other site 265311000476 active site 265311000477 catalytic residue [active] 265311000478 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 265311000479 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 265311000480 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 265311000481 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 265311000482 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 265311000483 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 265311000484 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 265311000485 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 265311000486 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 265311000487 putative translocon binding site; other site 265311000488 protein-rRNA interface [nucleotide binding]; other site 265311000489 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 265311000490 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 265311000491 G-X-X-G motif; other site 265311000492 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 265311000493 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 265311000494 23S rRNA interface [nucleotide binding]; other site 265311000495 5S rRNA interface [nucleotide binding]; other site 265311000496 putative antibiotic binding site [chemical binding]; other site 265311000497 L25 interface [polypeptide binding]; other site 265311000498 L27 interface [polypeptide binding]; other site 265311000499 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 265311000500 putative translocon interaction site; other site 265311000501 23S rRNA interface [nucleotide binding]; other site 265311000502 signal recognition particle (SRP54) interaction site; other site 265311000503 L23 interface [polypeptide binding]; other site 265311000504 trigger factor interaction site; other site 265311000505 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 265311000506 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 265311000507 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 265311000508 RNA binding site [nucleotide binding]; other site 265311000509 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 265311000510 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 265311000511 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 265311000512 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 265311000513 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 265311000514 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 265311000515 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 265311000516 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 265311000517 5S rRNA interface [nucleotide binding]; other site 265311000518 L27 interface [polypeptide binding]; other site 265311000519 23S rRNA interface [nucleotide binding]; other site 265311000520 L5 interface [polypeptide binding]; other site 265311000521 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 265311000522 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 265311000523 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 265311000524 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 265311000525 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 265311000526 SecY translocase; Region: SecY; pfam00344 265311000527 Cytidine deaminase [Nucleotide transport and metabolism]; Region: Cdd; COG0295 265311000528 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 265311000529 active site 265311000530 catalytic motif [active] 265311000531 Zn binding site [ion binding]; other site 265311000532 adenylate kinase; Reviewed; Region: adk; PRK00279 265311000533 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 265311000534 AMP-binding site [chemical binding]; other site 265311000535 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 265311000536 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 265311000537 active site 265311000538 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 265311000539 rRNA binding site [nucleotide binding]; other site 265311000540 predicted 30S ribosome binding site; other site 265311000541 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 265311000542 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 265311000543 30S ribosomal protein S11; Validated; Region: PRK05309 265311000544 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 265311000545 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 265311000546 alphaNTD homodimer interface [polypeptide binding]; other site 265311000547 alphaNTD - beta interaction site [polypeptide binding]; other site 265311000548 alphaNTD - beta' interaction site [polypeptide binding]; other site 265311000549 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 265311000550 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 265311000551 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13632 265311000552 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 265311000553 Walker A/P-loop; other site 265311000554 ATP binding site [chemical binding]; other site 265311000555 Q-loop/lid; other site 265311000556 ABC transporter signature motif; other site 265311000557 Walker B; other site 265311000558 D-loop; other site 265311000559 H-loop/switch region; other site 265311000560 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13645 265311000561 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 265311000562 Walker A/P-loop; other site 265311000563 ATP binding site [chemical binding]; other site 265311000564 Q-loop/lid; other site 265311000565 ABC transporter signature motif; other site 265311000566 Walker B; other site 265311000567 D-loop; other site 265311000568 H-loop/switch region; other site 265311000569 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 265311000570 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 265311000571 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 265311000572 dimerization interface 3.5A [polypeptide binding]; other site 265311000573 active site 265311000574 FtsX-like permease family; Region: FtsX; pfam02687 265311000575 FtsX-like permease family; Region: FtsX; pfam02687 265311000576 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 265311000577 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 265311000578 FtsX-like permease family; Region: FtsX; pfam02687 265311000579 FtsX-like permease family; Region: FtsX; pfam02687 265311000580 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 265311000581 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 265311000582 nucleotide binding pocket [chemical binding]; other site 265311000583 K-X-D-G motif; other site 265311000584 catalytic site [active] 265311000585 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 265311000586 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 265311000587 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 265311000588 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 265311000589 Dimer interface [polypeptide binding]; other site 265311000590 BRCT sequence motif; other site 265311000591 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; pfam02686 265311000592 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 265311000593 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 265311000594 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 265311000595 GatB domain; Region: GatB_Yqey; smart00845 265311000596 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 265311000597 TrkA-N domain; Region: TrkA_N; pfam02254 265311000598 TrkA-C domain; Region: TrkA_C; pfam02080 265311000599 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 265311000600 Cation transport protein; Region: TrkH; cl17365 265311000601 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 265311000602 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 265311000603 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 265311000604 homodimer interface [polypeptide binding]; other site 265311000605 NADP binding site [chemical binding]; other site 265311000606 substrate binding site [chemical binding]; other site 265311000607 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 265311000608 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 265311000609 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 265311000610 Walker A/P-loop; other site 265311000611 ATP binding site [chemical binding]; other site 265311000612 Q-loop/lid; other site 265311000613 ABC transporter signature motif; other site 265311000614 Walker B; other site 265311000615 D-loop; other site 265311000616 H-loop/switch region; other site 265311000617 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 265311000618 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 265311000619 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 265311000620 active site 265311000621 motif I; other site 265311000622 motif II; other site 265311000623 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 265311000624 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 265311000625 active site 265311000626 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 265311000627 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 265311000628 DNA binding residues [nucleotide binding] 265311000629 putative dimer interface [polypeptide binding]; other site 265311000630 short chain dehydrogenase; Provisional; Region: PRK06180 265311000631 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 265311000632 NADP binding site [chemical binding]; other site 265311000633 active site 265311000634 steroid binding site; other site 265311000635 short chain dehydrogenase; Provisional; Region: PRK06180 265311000636 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 265311000637 NADP binding site [chemical binding]; other site 265311000638 active site 265311000639 steroid binding site; other site 265311000640 6-phosphofructokinase; Provisional; Region: PRK03202 265311000641 active site 265311000642 ADP/pyrophosphate binding site [chemical binding]; other site 265311000643 dimerization interface [polypeptide binding]; other site 265311000644 allosteric effector site; other site 265311000645 fructose-1,6-bisphosphate binding site; other site 265311000646 pyruvate kinase; Provisional; Region: PRK05826 265311000647 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; cd00288 265311000648 domain interfaces; other site 265311000649 active site 265311000650 Pyruvate kinase, alpha/beta domain; Region: PK_C; cl19522 265311000651 SnoaL-like domain; Region: SnoaL_2; pfam12680 265311000652 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 265311000653 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 265311000654 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 265311000655 active site 265311000656 dimer interface [polypeptide binding]; other site 265311000657 motif 1; other site 265311000658 motif 2; other site 265311000659 motif 3; other site 265311000660 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 265311000661 anticodon binding site; other site 265311000662 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 265311000663 catalytic residues [active] 265311000664 transcriptional repressor UlaR; Provisional; Region: PRK13509 265311000665 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 265311000666 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 265311000667 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 265311000668 putative substrate binding site [chemical binding]; other site 265311000669 putative ATP binding site [chemical binding]; other site 265311000670 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 265311000671 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 265311000672 active site 265311000673 phosphorylation site [posttranslational modification] 265311000674 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 265311000675 active site 265311000676 P-loop; other site 265311000677 phosphorylation site [posttranslational modification] 265311000678 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 265311000679 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 265311000680 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 265311000681 Walker A/P-loop; other site 265311000682 ATP binding site [chemical binding]; other site 265311000683 ABC transporter signature motif; other site 265311000684 Walker B; other site 265311000685 D-loop; other site 265311000686 H-loop/switch region; other site 265311000687 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 265311000688 Acyltransferase family; Region: Acyl_transf_3; cl19154 265311000689 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 265311000690 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 265311000691 HPr interaction site; other site 265311000692 glycerol kinase (GK) interaction site [polypeptide binding]; other site 265311000693 active site 265311000694 phosphorylation site [posttranslational modification] 265311000695 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 265311000696 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 265311000697 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 265311000698 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 265311000699 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 265311000700 23S rRNA binding site [nucleotide binding]; other site 265311000701 L21 binding site [polypeptide binding]; other site 265311000702 L13 binding site [polypeptide binding]; other site 265311000703 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 265311000704 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 265311000705 active site 265311000706 HIGH motif; other site 265311000707 dimer interface [polypeptide binding]; other site 265311000708 KMSKS motif; other site 265311000709 ATP-NAD kinase; Region: NAD_kinase; cl01255 265311000710 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 265311000711 S-adenosylmethionine binding site [chemical binding]; other site 265311000712 Guanylate kinase; Region: Guanylate_kin; pfam00625 265311000713 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 265311000714 catalytic site [active] 265311000715 G-X2-G-X-G-K; other site 265311000716 16S rRNA methyltransferase B; Provisional; Region: PRK14902 265311000717 NusB family; Region: NusB; pfam01029 265311000718 putative RNA binding site [nucleotide binding]; other site 265311000719 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 265311000720 S-adenosylmethionine binding site [chemical binding]; other site 265311000721 cytidylate kinase; Provisional; Region: cmk; PRK00023 265311000722 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 265311000723 CMP-binding site; other site 265311000724 The sites determining sugar specificity; other site 265311000725 GTP-binding protein Der; Reviewed; Region: PRK00093 265311000726 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 265311000727 G1 box; other site 265311000728 GTP/Mg2+ binding site [chemical binding]; other site 265311000729 Switch I region; other site 265311000730 G2 box; other site 265311000731 Switch II region; other site 265311000732 G3 box; other site 265311000733 G4 box; other site 265311000734 G5 box; other site 265311000735 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 265311000736 G1 box; other site 265311000737 GTP/Mg2+ binding site [chemical binding]; other site 265311000738 Switch I region; other site 265311000739 G2 box; other site 265311000740 G3 box; other site 265311000741 Switch II region; other site 265311000742 G4 box; other site 265311000743 G5 box; other site 265311000744 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 265311000745 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 265311000746 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 265311000747 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 265311000748 histone-like DNA-binding protein HU; Region: HU; cd13831 265311000749 dimer interface [polypeptide binding]; other site 265311000750 DNA binding site [nucleotide binding] 265311000751 Recombination protein U; Region: RecU; pfam03838 265311000752 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 265311000753 recombinase A; Provisional; Region: recA; PRK09354 265311000754 recA bacterial DNA recombination protein; Region: RecA; cl19152 265311000755 phosphodiesterase; Provisional; Region: PRK12704 265311000756 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 265311000757 Zn2+ binding site [ion binding]; other site 265311000758 Mg2+ binding site [ion binding]; other site 265311000759 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 265311000760 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 265311000761 ribonuclease R; Region: RNase_R; TIGR02063 265311000762 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 265311000763 RNB domain; Region: RNB; pfam00773 265311000764 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 265311000765 RNA binding site [nucleotide binding]; other site 265311000766 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 265311000767 SmpB-tmRNA interface; other site 265311000768 Protein melan-A; Region: MLANA; pfam14991 265311000769 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 265311000770 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 265311000771 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 265311000772 active site turn [active] 265311000773 phosphorylation site [posttranslational modification] 265311000774 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 265311000775 active site 265311000776 Beta-lactamase; Region: Beta-lactamase; pfam00144 265311000777 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 265311000778 MgtE intracellular N domain; Region: MgtE_N; pfam03448 265311000779 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 265311000780 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; cd02205 265311000781 Divalent cation transporter; Region: MgtE; cl00786 265311000782 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 265311000783 S-adenosylmethionine binding site [chemical binding]; other site 265311000784 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 265311000785 active site 265311000786 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 265311000787 Catalytic domain of Protein Kinases; Region: PKc; cd00180 265311000788 active site 265311000789 ATP binding site [chemical binding]; other site 265311000790 substrate binding site [chemical binding]; other site 265311000791 activation loop (A-loop); other site 265311000792 GTPase RsgA; Reviewed; Region: PRK00098 265311000793 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 265311000794 RNA binding site [nucleotide binding]; other site 265311000795 homodimer interface [polypeptide binding]; other site 265311000796 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 265311000797 GTPase/Zn-binding domain interface [polypeptide binding]; other site 265311000798 GTP/Mg2+ binding site [chemical binding]; other site 265311000799 G4 box; other site 265311000800 G5 box; other site 265311000801 G1 box; other site 265311000802 Switch I region; other site 265311000803 G2 box; other site 265311000804 G3 box; other site 265311000805 Switch II region; other site 265311000806 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 265311000807 substrate binding site [chemical binding]; other site 265311000808 hexamer interface [polypeptide binding]; other site 265311000809 metal binding site [ion binding]; metal-binding site 265311000810 Thiamine pyrophosphokinase; Region: TPK; cd07995 265311000811 active site 265311000812 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 265311000813 dimerization interface [polypeptide binding]; other site 265311000814 thiamine binding site [chemical binding]; other site 265311000815 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 265311000816 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 265311000817 Asp23 family; Region: Asp23; pfam03780 265311000818 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 265311000819 DAK2 domain; Region: Dak2; pfam02734 265311000820 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 265311000821 putative phosphate acyltransferase; Provisional; Region: PRK05331 265311000822 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 265311000823 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 265311000824 dimerization interface [polypeptide binding]; other site 265311000825 active site 265311000826 metal binding site [ion binding]; metal-binding site 265311000827 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 265311000828 dsRNA binding site [nucleotide binding]; other site 265311000829 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 265311000830 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 265311000831 Walker A/P-loop; other site 265311000832 ATP binding site [chemical binding]; other site 265311000833 Q-loop/lid; other site 265311000834 ABC transporter signature motif; other site 265311000835 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 265311000836 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 265311000837 Q-loop/lid; other site 265311000838 ABC transporter signature motif; other site 265311000839 Walker B; other site 265311000840 D-loop; other site 265311000841 H-loop/switch region; other site 265311000842 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 265311000843 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 265311000844 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 265311000845 dimer interface [polypeptide binding]; other site 265311000846 conserved gate region; other site 265311000847 putative PBP binding loops; other site 265311000848 ABC-ATPase subunit interface; other site 265311000849 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 265311000850 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 265311000851 dimer interface [polypeptide binding]; other site 265311000852 conserved gate region; other site 265311000853 putative PBP binding loops; other site 265311000854 ABC-ATPase subunit interface; other site 265311000855 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 265311000856 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 265311000857 Walker A/P-loop; other site 265311000858 ATP binding site [chemical binding]; other site 265311000859 Q-loop/lid; other site 265311000860 ABC transporter signature motif; other site 265311000861 Walker B; other site 265311000862 D-loop; other site 265311000863 H-loop/switch region; other site 265311000864 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 265311000865 PhoU domain; Region: PhoU; pfam01895 265311000866 PhoU domain; Region: PhoU; pfam01895 265311000867 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 265311000868 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 265311000869 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 265311000870 P loop; other site 265311000871 GTP binding site [chemical binding]; other site 265311000872 putative DNA-binding protein; Validated; Region: PRK00118 265311000873 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 265311000874 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 265311000875 putative active site [active] 265311000876 metal binding site [ion binding]; metal-binding site 265311000877 homodimer binding site [polypeptide binding]; other site 265311000878 S-adenosylmethionine synthetase; Validated; Region: PRK05250 265311000879 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 265311000880 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 265311000881 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 265311000882 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 265311000883 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 265311000884 active site 265311000885 Zn binding site [ion binding]; other site 265311000886 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 265311000887 Glucose inhibited division protein A; Region: GIDA; pfam01134 265311000888 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 265311000889 ligand binding site [chemical binding]; other site 265311000890 active site 265311000891 UGI interface [polypeptide binding]; other site 265311000892 catalytic site [active] 265311000893 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 265311000894 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 265311000895 generic binding surface II; other site 265311000896 generic binding surface I; other site 265311000897 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 265311000898 Zn2+ binding site [ion binding]; other site 265311000899 Mg2+ binding site [ion binding]; other site 265311000900 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 265311000901 HIT family signature motif; other site 265311000902 catalytic residue [active] 265311000903 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 265311000904 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 265311000905 catalytic residue [active] 265311000906 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 265311000907 trimerization site [polypeptide binding]; other site 265311000908 active site 265311000909 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 265311000910 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 265311000911 DNA binding residues [nucleotide binding] 265311000912 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 265311000913 putative dimer interface [polypeptide binding]; other site 265311000914 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 265311000915 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 265311000916 active site 265311000917 catalytic tetrad [active] 265311000918 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 265311000919 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 265311000920 active site 265311000921 dimer interface [polypeptide binding]; other site 265311000922 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 265311000923 dimer interface [polypeptide binding]; other site 265311000924 active site 265311000925 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 265311000926 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 265311000927 Walker A/P-loop; other site 265311000928 ATP binding site [chemical binding]; other site 265311000929 Q-loop/lid; other site 265311000930 ABC transporter signature motif; other site 265311000931 Walker B; other site 265311000932 D-loop; other site 265311000933 H-loop/switch region; other site 265311000934 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 265311000935 dUTPase; Region: dUTPase_2; pfam08761 265311000936 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 265311000937 active site 265311000938 homodimer interface [polypeptide binding]; other site 265311000939 metal binding site [ion binding]; metal-binding site 265311000940 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 265311000941 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 265311000942 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 265311000943 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 265311000944 tetrameric interface [polypeptide binding]; other site 265311000945 activator binding site; other site 265311000946 NADP binding site [chemical binding]; other site 265311000947 substrate binding site [chemical binding]; other site 265311000948 catalytic residues [active] 265311000949 FtsX-like permease family; Region: FtsX; pfam02687 265311000950 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 265311000951 FtsX-like permease family; Region: FtsX; pfam02687 265311000952 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 265311000953 FtsX-like permease family; Region: FtsX; pfam02687 265311000954 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 265311000955 DJ-1 family protein; Region: not_thiJ; TIGR01383 265311000956 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 265311000957 conserved cys residue [active] 265311000958 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...; Region: Peptidase_C39E; cd02424 265311000959 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 265311000960 putative active site [active] 265311000961 metal-binding heat shock protein; Provisional; Region: PRK00016 265311000962 GTPase Era; Reviewed; Region: era; PRK00089 265311000963 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 265311000964 G1 box; other site 265311000965 GTP/Mg2+ binding site [chemical binding]; other site 265311000966 Switch I region; other site 265311000967 G2 box; other site 265311000968 Switch II region; other site 265311000969 G3 box; other site 265311000970 G4 box; other site 265311000971 G5 box; other site 265311000972 KH domain; Region: KH_2; pfam07650 265311000973 Recombination protein O N terminal; Region: RecO_N; pfam11967 265311000974 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 265311000975 Recombination protein O C terminal; Region: RecO_C; pfam02565 265311000976 glycyl-tRNA synthetase; Provisional; Region: PRK04173 265311000977 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 265311000978 dimer interface [polypeptide binding]; other site 265311000979 motif 1; other site 265311000980 active site 265311000981 motif 2; other site 265311000982 motif 3; other site 265311000983 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 265311000984 anticodon binding site; other site 265311000985 DNA primase; Validated; Region: dnaG; PRK05667 265311000986 CHC2 zinc finger; Region: zf-CHC2; cl17510 265311000987 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 265311000988 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 265311000989 active site 265311000990 metal binding site [ion binding]; metal-binding site 265311000991 interdomain interaction site; other site 265311000992 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 265311000993 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 265311000994 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 265311000995 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 265311000996 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 265311000997 DNA binding residues [nucleotide binding] 265311000998 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 265311000999 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 265311001000 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 265311001001 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; cl17251 265311001002 ATP binding site [chemical binding]; other site 265311001003 putative Mg++ binding site [ion binding]; other site 265311001004 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 265311001005 nucleotide binding region [chemical binding]; other site 265311001006 ATP-binding site [chemical binding]; other site 265311001007 Uncharacterized conserved protein [Function unknown]; Region: COG1284 265311001008 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 265311001009 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 265311001010 MMPL family; Region: MMPL; cl14618 265311001011 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 265311001012 active site 265311001013 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 265311001014 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 265311001015 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 265311001016 Zn2+ binding site [ion binding]; other site 265311001017 Mg2+ binding site [ion binding]; other site 265311001018 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 265311001019 synthetase active site [active] 265311001020 NTP binding site [chemical binding]; other site 265311001021 metal binding site [ion binding]; metal-binding site 265311001022 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 265311001023 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 265311001024 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 265311001025 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 265311001026 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 265311001027 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 265311001028 CoA-binding site [chemical binding]; other site 265311001029 ATP-binding [chemical binding]; other site 265311001030 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 265311001031 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 265311001032 RNA binding site [nucleotide binding]; other site 265311001033 active site 265311001034 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 265311001035 active site 265311001036 nucleotide binding site [chemical binding]; other site 265311001037 HIGH motif; other site 265311001038 KMSKS motif; other site 265311001039 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 265311001040 16S/18S rRNA binding site [nucleotide binding]; other site 265311001041 S13e-L30e interaction site [polypeptide binding]; other site 265311001042 25S rRNA binding site [nucleotide binding]; other site 265311001043 hypothetical protein; Provisional; Region: PRK12705 265311001044 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 265311001045 RIP metalloprotease RseP; Region: TIGR00054 265311001046 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 265311001047 active site 265311001048 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 265311001049 putative substrate binding region [chemical binding]; other site 265311001050 DNA polymerase III PolC; Validated; Region: polC; PRK00448 265311001051 DNA polymerase III polC-type N-terminus I; Region: DNA_pol3_a_NI; pfam14480 265311001052 DNA polymerase III polC-type N-terminus II; Region: DNA_pol3_a_NII; pfam11490 265311001053 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 265311001054 generic binding surface II; other site 265311001055 generic binding surface I; other site 265311001056 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 265311001057 active site 265311001058 putative PHP Thumb interface [polypeptide binding]; other site 265311001059 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 265311001060 active site 265311001061 catalytic site [active] 265311001062 substrate binding site [chemical binding]; other site 265311001063 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 265311001064 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 265311001065 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 265311001066 dimer interface [polypeptide binding]; other site 265311001067 FMN binding site [chemical binding]; other site 265311001068 Sm and related proteins; Region: Sm_like; cl00259 265311001069 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 265311001070 putative oligomer interface [polypeptide binding]; other site 265311001071 putative RNA binding site [nucleotide binding]; other site 265311001072 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 265311001073 NusA N-terminal domain; Region: NusA_N; pfam08529 265311001074 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 265311001075 RNA binding site [nucleotide binding]; other site 265311001076 homodimer interface [polypeptide binding]; other site 265311001077 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 265311001078 G-X-X-G motif; other site 265311001079 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 265311001080 G-X-X-G motif; other site 265311001081 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; cd00279 265311001082 putative RNA binding cleft [nucleotide binding]; other site 265311001083 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 265311001084 translation initiation factor IF-2; Region: IF-2; TIGR00487 265311001085 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 265311001086 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 265311001087 G1 box; other site 265311001088 putative GEF interaction site [polypeptide binding]; other site 265311001089 GTP/Mg2+ binding site [chemical binding]; other site 265311001090 Switch I region; other site 265311001091 G2 box; other site 265311001092 G3 box; other site 265311001093 Switch II region; other site 265311001094 G4 box; other site 265311001095 G5 box; other site 265311001096 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 265311001097 Translation-initiation factor 2; Region: IF-2; pfam11987 265311001098 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 265311001099 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 265311001100 AAA domain; Region: AAA_21; pfam13304 265311001101 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 265311001102 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 265311001103 Walker A motif; other site 265311001104 ATP binding site [chemical binding]; other site 265311001105 Walker B motif; other site 265311001106 Uncharacterized conserved protein [Function unknown]; Region: COG3410 265311001107 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 265311001108 HSP70 interaction site [polypeptide binding]; other site 265311001109 Major Facilitator Superfamily; Region: MFS_1; pfam07690 265311001110 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 265311001111 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cl19095 265311001112 cofactor binding site; other site 265311001113 DNA binding site [nucleotide binding] 265311001114 substrate interaction site [chemical binding]; other site 265311001115 Uncharacterized conserved protein [Function unknown]; Region: COG1479 265311001116 Protein of unknown function DUF262; Region: DUF262; pfam03235 265311001117 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 265311001118 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 265311001119 ATP-binding site [chemical binding]; other site 265311001120 Sugar specificity; other site 265311001121 Pyrimidine base specificity; other site 265311001122 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 265311001123 putative active site [active] 265311001124 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cl19095 265311001125 cofactor binding site; other site 265311001126 DNA binding site [nucleotide binding] 265311001127 substrate interaction site [chemical binding]; other site 265311001128 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 265311001129 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 265311001130 ATP binding site [chemical binding]; other site 265311001131 Mg2+ binding site [ion binding]; other site 265311001132 G-X-G motif; other site 265311001133 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 265311001134 anchoring element; other site 265311001135 dimer interface [polypeptide binding]; other site 265311001136 ATP binding site [chemical binding]; other site 265311001137 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 265311001138 active site 265311001139 metal binding site [ion binding]; metal-binding site 265311001140 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 265311001141 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 265311001142 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 265311001143 CAP-like domain; other site 265311001144 active site 265311001145 primary dimer interface [polypeptide binding]; other site 265311001146 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 265311001147 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 265311001148 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 265311001149 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 265311001150 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 265311001151 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 265311001152 HPr interaction site; other site 265311001153 glycerol kinase (GK) interaction site [polypeptide binding]; other site 265311001154 active site 265311001155 phosphorylation site [posttranslational modification] 265311001156 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 265311001157 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 265311001158 active site turn [active] 265311001159 phosphorylation site [posttranslational modification] 265311001160 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 265311001161 putative substrate translocation pore; other site 265311001162 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 265311001163 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 265311001164 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 265311001165 PLD-like domain; Region: PLDc_2; pfam13091 265311001166 putative active site [active] 265311001167 catalytic site [active] 265311001168 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 265311001169 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 265311001170 ATP binding site [chemical binding]; other site 265311001171 putative Mg++ binding site [ion binding]; other site 265311001172 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 265311001173 nucleotide binding region [chemical binding]; other site 265311001174 ATP-binding site [chemical binding]; other site 265311001175 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 265311001176 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 265311001177 putative acyl-acceptor binding pocket; other site 265311001178 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 265311001179 DNA-binding site [nucleotide binding]; DNA binding site 265311001180 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 265311001181 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 265311001182 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 265311001183 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 265311001184 active site 265311001185 homotrimer interface [polypeptide binding]; other site 265311001186 catalytic site [active] 265311001187 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 265311001188 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 265311001189 HPr interaction site; other site 265311001190 glycerol kinase (GK) interaction site [polypeptide binding]; other site 265311001191 active site 265311001192 phosphorylation site [posttranslational modification] 265311001193 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 265311001194 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 265311001195 active site turn [active] 265311001196 phosphorylation site [posttranslational modification] 265311001197 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 265311001198 Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may...; Region: SynN; cd00179 265311001199 nSec1 interaction sites; other site 265311001200 interdomain interaction site; other site 265311001201 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 265311001202 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 265311001203 AAA domain; Region: AAA_30; pfam13604 265311001204 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 265311001205 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 265311001206 active site 265311001207 catalytic triad [active] 265311001208 oxyanion hole [active] 265311001209 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 265311001210 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 265311001211 active site 265311001212 DNA binding site [nucleotide binding] 265311001213 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 265311001214 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 265311001215 RNA binding surface [nucleotide binding]; other site 265311001216 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 265311001217 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 265311001218 S-adenosylmethionine binding site [chemical binding]; other site 265311001219 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 265311001220 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 265311001221 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 265311001222 generic binding surface II; other site 265311001223 generic binding surface I; other site 265311001224 transcription antitermination factor NusB; Region: nusB; TIGR01951 265311001225 putative RNA binding site [nucleotide binding]; other site 265311001226 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 265311001227 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 265311001228 AP (apurinic/apyrimidinic) site pocket; other site 265311001229 DNA interaction; other site 265311001230 Metal-binding active site; metal-binding site 265311001231 Riboflavin kinase; Region: Flavokinase; pfam01687 265311001232 Herpesvirus BLRF2 protein; Region: Herpes_BLRF2; pfam05812 265311001233 membrane protein; Provisional; Region: PRK14399 265311001234 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 265311001235 catalytic triad [active] 265311001236 conserved cis-peptide bond; other site 265311001237 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 265311001238 RNA binding site [nucleotide binding]; other site 265311001239 GMP synthase; Reviewed; Region: guaA; PRK00074 265311001240 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 265311001241 AMP/PPi binding site [chemical binding]; other site 265311001242 candidate oxyanion hole; other site 265311001243 catalytic triad [active] 265311001244 potential glutamine specificity residues [chemical binding]; other site 265311001245 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 265311001246 ATP Binding subdomain [chemical binding]; other site 265311001247 Ligand Binding sites [chemical binding]; other site 265311001248 Dimerization subdomain; other site 265311001249 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 265311001250 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 265311001251 active site 265311001252 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 265311001253 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 265311001254 putative active site [active] 265311001255 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 265311001256 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 265311001257 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 265311001258 TPP-binding site [chemical binding]; other site 265311001259 dimer interface [polypeptide binding]; other site 265311001260 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 265311001261 PYR/PP interface [polypeptide binding]; other site 265311001262 dimer interface [polypeptide binding]; other site 265311001263 TPP binding site [chemical binding]; other site 265311001264 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 265311001265 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 265311001266 ribosome biogenesis GTPase YqeH; Region: GTPase_YqeH; TIGR03597 265311001267 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 265311001268 GTP/Mg2+ binding site [chemical binding]; other site 265311001269 G4 box; other site 265311001270 G5 box; other site 265311001271 G1 box; other site 265311001272 Switch I region; other site 265311001273 G2 box; other site 265311001274 G3 box; other site 265311001275 Switch II region; other site 265311001276 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 265311001277 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 265311001278 active site 265311001279 HIGH motif; other site 265311001280 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 265311001281 KMSKS motif; other site 265311001282 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 265311001283 tRNA binding surface [nucleotide binding]; other site 265311001284 anticodon binding site; other site 265311001285 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 265311001286 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 265311001287 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 265311001288 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 265311001289 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 265311001290 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 265311001291 motif II; other site 265311001292 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 265311001293 Predicted GTPase [General function prediction only]; Region: COG0218 265311001294 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 265311001295 G1 box; other site 265311001296 GTP/Mg2+ binding site [chemical binding]; other site 265311001297 Switch I region; other site 265311001298 G2 box; other site 265311001299 G3 box; other site 265311001300 Switch II region; other site 265311001301 G4 box; other site 265311001302 G5 box; other site 265311001303 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 265311001304 putative NAD(P) binding site [chemical binding]; other site 265311001305 homodimer interface [polypeptide binding]; other site 265311001306 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 265311001307 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 265311001308 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 265311001309 dimer interface [polypeptide binding]; other site 265311001310 anticodon binding site; other site 265311001311 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 265311001312 homodimer interface [polypeptide binding]; other site 265311001313 motif 1; other site 265311001314 active site 265311001315 motif 2; other site 265311001316 GAD domain; Region: GAD; pfam02938 265311001317 motif 3; other site 265311001318 histidyl-tRNA synthetase; Region: hisS; TIGR00442 265311001319 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 265311001320 dimer interface [polypeptide binding]; other site 265311001321 motif 1; other site 265311001322 active site 265311001323 motif 2; other site 265311001324 motif 3; other site 265311001325 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 265311001326 anticodon binding site; other site 265311001327 Serpentine type 7TM GPCR chemoreceptor Srh; Region: 7TM_GPCR_Srh; cl11665 265311001328 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; cl19912 265311001329 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 265311001330 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 265311001331 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 265311001332 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 265311001333 putative nicotinate-nucleotide adenylyltransferase; Validated; Region: nadD; PRK07152 265311001334 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 265311001335 active site 265311001336 (T/H)XGH motif; other site 265311001337 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 265311001338 Zn2+ binding site [ion binding]; other site 265311001339 Mg2+ binding site [ion binding]; other site 265311001340 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 265311001341 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 265311001342 active site 265311001343 dimerization interface [polypeptide binding]; other site 265311001344 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 265311001345 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 265311001346 substrate binding site [chemical binding]; other site 265311001347 Membrane transport protein; Region: Mem_trans; cl09117 265311001348 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 265311001349 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 265311001350 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 265311001351 active site 265311001352 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 265311001353 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 265311001354 putative acyl-acceptor binding pocket; other site 265311001355 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 265311001356 folate binding site [chemical binding]; other site 265311001357 NADP+ binding site [chemical binding]; other site 265311001358 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 265311001359 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 265311001360 catalytic motif [active] 265311001361 Zn binding site [ion binding]; other site 265311001362 Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell division and chromosome partitioning]; Region: NIP100; COG5244 265311001363 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 265311001364 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 265311001365 RNA binding surface [nucleotide binding]; other site 265311001366 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 265311001367 active site 265311001368 lipoprotein signal peptidase; Provisional; Region: PRK14766 265311001369 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 265311001370 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 265311001371 active site 265311001372 HIGH motif; other site 265311001373 KMSKS motif; other site 265311001374 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 265311001375 tRNA binding surface [nucleotide binding]; other site 265311001376 anticodon binding site; other site 265311001377 Putative lysophospholipase; Region: Hydrolase_4; cl19140 265311001378 Protein of unknown function (DUF552); Region: DUF552; pfam04472 265311001379 cell division protein FtsZ; Validated; Region: PRK09330 265311001380 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 265311001381 nucleotide binding site [chemical binding]; other site 265311001382 SulA interaction site; other site 265311001383 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 265311001384 MraZ protein; Region: MraZ; pfam02381 265311001385 cell division protein MraZ; Reviewed; Region: PRK00326 265311001386 MraZ protein; Region: MraZ; pfam02381 265311001387 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 265311001388 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 265311001389 phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial; Region: pheT_bact; TIGR00472 265311001390 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 265311001391 putative tRNA-binding site [nucleotide binding]; other site 265311001392 B3/4 domain; Region: B3_4; cl19243 265311001393 tRNA synthetase B5 domain; Region: B5; smart00874 265311001394 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 265311001395 motif 1; other site 265311001396 dimer interface [polypeptide binding]; other site 265311001397 active site 265311001398 motif 2; other site 265311001399 motif 3; other site 265311001400 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 265311001401 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 265311001402 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 265311001403 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 265311001404 dimer interface [polypeptide binding]; other site 265311001405 motif 1; other site 265311001406 active site 265311001407 motif 2; other site 265311001408 motif 3; other site 265311001409 DNA polymerase III PolC; Validated; Region: polC; PRK00448 265311001410 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 265311001411 FtsX-like permease family; Region: FtsX; pfam02687 265311001412 FtsX-like permease family; Region: FtsX; pfam02687 265311001413 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 265311001414 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 265311001415 potential catalytic triad [active] 265311001416 conserved cys residue [active] 265311001417 recombination factor protein RarA; Reviewed; Region: PRK13342 265311001418 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 265311001419 Walker A motif; other site 265311001420 ATP binding site [chemical binding]; other site 265311001421 Walker B motif; other site 265311001422 arginine finger; other site 265311001423 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 265311001424 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 265311001425 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 265311001426 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 265311001427 Walker A motif; other site 265311001428 ATP binding site [chemical binding]; other site 265311001429 Walker B motif; other site 265311001430 arginine finger; other site 265311001431 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 265311001432 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 265311001433 trigger factor; Region: tig; TIGR00115 265311001434 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 265311001435 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 265311001436 translation elongation factor P; Region: efp; TIGR00038 265311001437 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 265311001438 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 265311001439 RNA binding site [nucleotide binding]; other site 265311001440 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 265311001441 RNA binding site [nucleotide binding]; other site 265311001442 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 265311001443 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 265311001444 putative active site [active] 265311001445 substrate binding site [chemical binding]; other site 265311001446 putative cosubstrate binding site; other site 265311001447 catalytic site [active] 265311001448 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 265311001449 substrate binding site [chemical binding]; other site 265311001450 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 265311001451 Protein of unknown function (DUF1682); Region: DUF1682; pfam07946 265311001452 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 265311001453 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 265311001454 Ligand Binding Site [chemical binding]; other site 265311001455 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 265311001456 Sulfate transporter family; Region: Sulfate_transp; cl19250 265311001457 chaperone protein DnaJ; Provisional; Region: PRK14296 265311001458 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 265311001459 HSP70 interaction site [polypeptide binding]; other site 265311001460 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 265311001461 Zn binding sites [ion binding]; other site 265311001462 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 265311001463 dimer interface [polypeptide binding]; other site 265311001464 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 265311001465 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 265311001466 nucleotide binding site [chemical binding]; other site 265311001467 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 265311001468 dimer interface [polypeptide binding]; other site 265311001469 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 265311001470 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 265311001471 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 265311001472 HrcA protein C terminal domain; Region: HrcA; pfam01628 265311001473 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 265311001474 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 265311001475 Walker A motif; other site 265311001476 ATP binding site [chemical binding]; other site 265311001477 Walker B motif; other site 265311001478 arginine finger; other site 265311001479 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 265311001480 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 265311001481 Walker A motif; other site 265311001482 ATP binding site [chemical binding]; other site 265311001483 Walker B motif; other site 265311001484 arginine finger; other site 265311001485 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 265311001486 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 265311001487 dimerization interface [polypeptide binding]; other site 265311001488 active site 265311001489 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 265311001490 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 265311001491 Walker A motif; other site 265311001492 ATP binding site [chemical binding]; other site 265311001493 Walker B motif; other site 265311001494 arginine finger; other site 265311001495 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 265311001496 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 265311001497 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 265311001498 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 265311001499 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 265311001500 Walker A/P-loop; other site 265311001501 ATP binding site [chemical binding]; other site 265311001502 Q-loop/lid; other site 265311001503 ABC transporter signature motif; other site 265311001504 Walker B; other site 265311001505 D-loop; other site 265311001506 H-loop/switch region; other site 265311001507 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 265311001508 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 265311001509 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 265311001510 Walker A/P-loop; other site 265311001511 ATP binding site [chemical binding]; other site 265311001512 Q-loop/lid; other site 265311001513 ABC transporter signature motif; other site 265311001514 Walker B; other site 265311001515 D-loop; other site 265311001516 H-loop/switch region; other site 265311001517 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 265311001518 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 265311001519 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 265311001520 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 265311001521 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 265311001522 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 265311001523 active site turn [active] 265311001524 phosphorylation site [posttranslational modification] 265311001525 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 265311001526 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 265311001527 Integration host factor (IHF) and similar proteins; Region: IHF; cd13832 265311001528 dimer interface [polypeptide binding]; other site 265311001529 DNA binding site [nucleotide binding] 265311001530 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 265311001531 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 265311001532 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 265311001533 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 265311001534 active site turn [active] 265311001535 phosphorylation site [posttranslational modification] 265311001536 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 265311001537 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 265311001538 hypothetical protein; Provisional; Region: PRK07205 265311001539 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 265311001540 active site 265311001541 metal binding site [ion binding]; metal-binding site 265311001542 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 265311001543 HSP70 interaction site [polypeptide binding]; other site 265311001544 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 265311001545 Protein of unknown function (DUF464); Region: DUF464; pfam04327 265311001546 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 265311001547 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 265311001548 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 265311001549 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 265311001550 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 265311001551 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 265311001552 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 265311001553 seryl-tRNA synthetase; Provisional; Region: PRK05431 265311001554 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 265311001555 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 265311001556 Walker A/P-loop; other site 265311001557 ATP binding site [chemical binding]; other site 265311001558 Q-loop/lid; other site 265311001559 ABC transporter signature motif; other site 265311001560 Walker B; other site 265311001561 D-loop; other site 265311001562 H-loop/switch region; other site 265311001563 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 265311001564 non-specific DNA binding site [nucleotide binding]; other site 265311001565 salt bridge; other site 265311001566 sequence-specific DNA binding site [nucleotide binding]; other site 265311001567 Integration host factor (IHF) and similar proteins; Region: IHF; cd13832 265311001568 dimer interface [polypeptide binding]; other site 265311001569 DNA binding site [nucleotide binding] 265311001570 Phage-related tail protein [Function unknown]; Region: COG5283 265311001571 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 265311001572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 265311001573 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 265311001574 Walker A/P-loop; other site 265311001575 ATP binding site [chemical binding]; other site 265311001576 Q-loop/lid; other site 265311001577 ABC transporter signature motif; other site 265311001578 Walker B; other site 265311001579 D-loop; other site 265311001580 H-loop/switch region; other site 265311001581 Domain of unknown function (DUF4559); Region: DUF4559; pfam15112 265311001582 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 265311001583 active site 265311001584 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 265311001585 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 265311001586 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 265311001587 active site 265311001588 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 265311001589 active site 265311001590 catalytic motif [active] 265311001591 Zn binding site [ion binding]; other site 265311001592 enolase; Provisional; Region: eno; PRK00077 265311001593 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 265311001594 dimer interface [polypeptide binding]; other site 265311001595 metal binding site [ion binding]; metal-binding site 265311001596 substrate binding pocket [chemical binding]; other site 265311001597 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 265311001598 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 265311001599 G1 box; other site 265311001600 putative GEF interaction site [polypeptide binding]; other site 265311001601 GTP/Mg2+ binding site [chemical binding]; other site 265311001602 Switch I region; other site 265311001603 G2 box; other site 265311001604 G3 box; other site 265311001605 Switch II region; other site 265311001606 G4 box; other site 265311001607 G5 box; other site 265311001608 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 265311001609 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 265311001610 ASCH domain; Region: ASCH; pfam04266 265311001611 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_34; cd04693 265311001612 nudix motif; other site 265311001613 GTP-binding protein LepA; Provisional; Region: PRK05433 265311001614 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 265311001615 G1 box; other site 265311001616 putative GEF interaction site [polypeptide binding]; other site 265311001617 GTP/Mg2+ binding site [chemical binding]; other site 265311001618 Switch I region; other site 265311001619 G2 box; other site 265311001620 G3 box; other site 265311001621 Switch II region; other site 265311001622 G4 box; other site 265311001623 G5 box; other site 265311001624 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 265311001625 Elongation Factor G, domain II; Region: EFG_II; pfam14492 265311001626 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 265311001627 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 265311001628 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 265311001629 Putative lysophospholipase; Region: Hydrolase_4; cl19140 265311001630 Putative lysophospholipase; Region: Hydrolase_4; cl19140 265311001631 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 265311001632 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_like; cd09277 265311001633 RNA/DNA hybrid binding site [nucleotide binding]; other site 265311001634 active site 265311001635 prolyl-tRNA synthetase; Provisional; Region: PRK08661 265311001636 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 265311001637 dimer interface [polypeptide binding]; other site 265311001638 motif 1; other site 265311001639 active site 265311001640 motif 2; other site 265311001641 motif 3; other site 265311001642 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 265311001643 anticodon binding site; other site 265311001644 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 265311001645 signal recognition particle protein; Provisional; Region: PRK10867 265311001646 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 265311001647 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 265311001648 P loop; other site 265311001649 GTP binding site [chemical binding]; other site 265311001650 Signal peptide binding domain; Region: SRP_SPB; pfam02978 265311001651 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 265311001652 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 265311001653 putative dimer interface [polypeptide binding]; other site 265311001654 putative anticodon binding site; other site 265311001655 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 265311001656 homodimer interface [polypeptide binding]; other site 265311001657 motif 1; other site 265311001658 motif 2; other site 265311001659 active site 265311001660 motif 3; other site 265311001661 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 265311001662 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 265311001663 active site 265311001664 motif I; other site 265311001665 motif II; other site 265311001666 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 265311001667 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 265311001668 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 265311001669 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 265311001670 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 265311001671 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 265311001672 tRNA threonylcarbamoyl adenosine modification protein YgjD; Region: T6A_YgjD; TIGR03723 265311001673 Pleckstrin homology-like domain; Region: PH-like; cl17171 265311001674 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 265311001675 DHH family; Region: DHH; pfam01368 265311001676 DHHA1 domain; Region: DHHA1; pfam02272 265311001677 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 265311001678 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 265311001679 active site 265311001680 HIGH motif; other site 265311001681 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 265311001682 KMSKS motif; other site 265311001683 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 265311001684 tRNA binding surface [nucleotide binding]; other site 265311001685 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 265311001686 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 265311001687 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 265311001688 23S rRNA interface [nucleotide binding]; other site 265311001689 L3 interface [polypeptide binding]; other site 265311001690 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 265311001691 Glycoprotease family; Region: Peptidase_M22; pfam00814 265311001692 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 265311001693 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 265311001694 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 265311001695 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 265311001696 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 265311001697 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 265311001698 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 265311001699 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 265311001700 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 265311001701 nucleotide binding site [chemical binding]; other site 265311001702 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 265311001703 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 265311001704 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 265311001705 active site 265311001706 catalytic site [active] 265311001707 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 265311001708 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 265311001709 active site turn [active] 265311001710 phosphorylation site [posttranslational modification] 265311001711 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 265311001712 Transcriptional regulators [Transcription]; Region: PurR; COG1609 265311001713 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 265311001714 DNA binding site [nucleotide binding] 265311001715 domain linker motif; other site 265311001716 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 265311001717 phosphoglyceromutase; Provisional; Region: PRK05434 265311001718 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 265311001719 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 265311001720 active site 265311001721 motif I; other site 265311001722 motif II; other site 265311001723 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 265311001724 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 265311001725 substrate binding site [chemical binding]; other site 265311001726 dimer interface [polypeptide binding]; other site 265311001727 catalytic triad [active] 265311001728 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 265311001729 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 265311001730 dimer interface [polypeptide binding]; other site 265311001731 conserved gate region; other site 265311001732 putative PBP binding loops; other site 265311001733 ABC-ATPase subunit interface; other site 265311001734 Uncharacterized conserved protein (DUF2361); Region: DUF2361; pfam10153 265311001735 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 265311001736 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 265311001737 dimer interface [polypeptide binding]; other site 265311001738 conserved gate region; other site 265311001739 putative PBP binding loops; other site 265311001740 ABC-ATPase subunit interface; other site 265311001741 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 265311001742 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 265311001743 Walker A/P-loop; other site 265311001744 ATP binding site [chemical binding]; other site 265311001745 Q-loop/lid; other site 265311001746 ABC transporter signature motif; other site 265311001747 Walker B; other site 265311001748 D-loop; other site 265311001749 H-loop/switch region; other site 265311001750 TOBE domain; Region: TOBE_2; pfam08402 265311001751 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 265311001752 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 265311001753 active site 265311001754 motif I; other site 265311001755 motif II; other site 265311001756 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 265311001757 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 265311001758 putative substrate binding site [chemical binding]; other site 265311001759 putative ATP binding site [chemical binding]; other site 265311001760 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 265311001761 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 265311001762 substrate binding [chemical binding]; other site 265311001763 active site 265311001764 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 265311001765 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 265311001766 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 265311001767 active site turn [active] 265311001768 phosphorylation site [posttranslational modification] 265311001769 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 265311001770 DNA-binding site [nucleotide binding]; DNA binding site 265311001771 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 265311001772 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 265311001773 UTRA domain; Region: UTRA; cl17743 265311001774 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 265311001775 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 265311001776 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 265311001777 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 265311001778 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 265311001779 homodimer interface [polypeptide binding]; other site 265311001780 NAD binding pocket [chemical binding]; other site 265311001781 ATP binding pocket [chemical binding]; other site 265311001782 Mg binding site [ion binding]; other site 265311001783 active-site loop [active] 265311001784 GTPase CgtA; Reviewed; Region: obgE; PRK12297 265311001785 GTP1/OBG; Region: GTP1_OBG; pfam01018 265311001786 Obg GTPase; Region: Obg; cd01898 265311001787 G1 box; other site 265311001788 GTP/Mg2+ binding site [chemical binding]; other site 265311001789 Switch I region; other site 265311001790 G2 box; other site 265311001791 G3 box; other site 265311001792 Switch II region; other site 265311001793 G4 box; other site 265311001794 G4 box; other site 265311001795 G5 box; other site 265311001796 Obg family GTPase CgtA, C-terminal extension; Region: Obg_CgtA_exten; TIGR03595 265311001797 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 265311001798 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 265311001799 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 265311001800 ATP binding site [chemical binding]; other site 265311001801 Mg++ binding site [ion binding]; other site 265311001802 motif III; other site 265311001803 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 265311001804 nucleotide binding region [chemical binding]; other site 265311001805 ATP-binding site [chemical binding]; other site 265311001806 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 265311001807 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 265311001808 substrate binding [chemical binding]; other site 265311001809 active site 265311001810 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 265311001811 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 265311001812 phosphotransferase system, EIIB; Region: PTS_EIIB; pfam00367 265311001813 active site turn [active] 265311001814 phosphorylation site [posttranslational modification] 265311001815 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 265311001816 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07187 265311001817 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 265311001818 Class I ribonucleotide reductase; Region: RNR_I; cd01679 265311001819 active site 265311001820 dimer interface [polypeptide binding]; other site 265311001821 catalytic residues [active] 265311001822 effector binding site; other site 265311001823 R2 peptide binding site; other site 265311001824 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 265311001825 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 265311001826 dimer interface [polypeptide binding]; other site 265311001827 putative radical transfer pathway; other site 265311001828 diiron center [ion binding]; other site 265311001829 tyrosyl radical; other site 265311001830 RNA polymerase beta'' subunit; Reviewed; Region: rpoC2; CHL00117 265311001831 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 265311001832 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 265311001833 Glucose inhibited division protein A; Region: GIDA; pfam01134 265311001834 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 265311001835 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 265311001836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 265311001837 Walker A/P-loop; other site 265311001838 ATP binding site [chemical binding]; other site 265311001839 Q-loop/lid; other site 265311001840 ABC transporter signature motif; other site 265311001841 Walker B; other site 265311001842 D-loop; other site 265311001843 H-loop/switch region; other site 265311001844 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 265311001845 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 265311001846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 265311001847 Walker A/P-loop; other site 265311001848 ATP binding site [chemical binding]; other site 265311001849 Q-loop/lid; other site 265311001850 ABC transporter signature motif; other site 265311001851 Walker B; other site 265311001852 D-loop; other site 265311001853 H-loop/switch region; other site 265311001854 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 265311001855 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 265311001856 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 265311001857 RNA/DNA hybrid binding site [nucleotide binding]; other site 265311001858 active site 265311001859 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 265311001860 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 265311001861 GTP/Mg2+ binding site [chemical binding]; other site 265311001862 G4 box; other site 265311001863 G5 box; other site 265311001864 G1 box; other site 265311001865 Switch I region; other site 265311001866 G2 box; other site 265311001867 G3 box; other site 265311001868 Switch II region; other site 265311001869 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 265311001870 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 265311001871 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 265311001872 RimM N-terminal domain; Region: RimM; pfam01782 265311001873 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 265311001874 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 265311001875 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 265311001876 dimer interface [polypeptide binding]; other site 265311001877 substrate binding site [chemical binding]; other site 265311001878 metal binding sites [ion binding]; metal-binding site 265311001879 hypothetical protein; Provisional; Region: PRK12378 265311001880 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 265311001881 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 265311001882 Substrate-binding site [chemical binding]; other site 265311001883 Substrate specificity [chemical binding]; other site 265311001884 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 265311001885 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 265311001886 RNA binding surface [nucleotide binding]; other site 265311001887 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 265311001888 active site 265311001889 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 265311001890 ScpA/B protein; Region: ScpA_ScpB; cl00598 265311001891 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 265311001892 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 265311001893 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 265311001894 active site 265311001895 HIGH motif; other site 265311001896 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 265311001897 KMSK motif region; other site 265311001898 tRNA binding surface [nucleotide binding]; other site 265311001899 DALR anticodon binding domain; Region: DALR_1; smart00836 265311001900 anticodon binding site; other site 265311001901 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 265311001902 hinge region; other site 265311001903 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 265311001904 putative nucleotide binding site [chemical binding]; other site 265311001905 uridine monophosphate binding site [chemical binding]; other site 265311001906 homohexameric interface [polypeptide binding]; other site 265311001907 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 265311001908 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 265311001909 NodB motif; other site 265311001910 active site 265311001911 catalytic site [active] 265311001912 metal binding site [ion binding]; metal-binding site 265311001913 elongation factor Ts; Provisional; Region: tsf; PRK09377 265311001914 UBA/TS-N domain; Region: UBA; pfam00627 265311001915 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 265311001916 rRNA interaction site [nucleotide binding]; other site 265311001917 S8 interaction site; other site 265311001918 putative laminin-1 binding site; other site 265311001919 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 265311001920 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 265311001921 RNA binding surface [nucleotide binding]; other site 265311001922 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 265311001923 active site 265311001924 CAAX protease self-immunity; Region: Abi; pfam02517 265311001925 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 265311001926 dimerization domain swap beta strand [polypeptide binding]; other site 265311001927 regulatory protein interface [polypeptide binding]; other site 265311001928 active site 265311001929 regulatory phosphorylation site [posttranslational modification]; other site 265311001930 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 265311001931 Part of AAA domain; Region: AAA_19; pfam13245 265311001932 AAA domain; Region: AAA_14; pfam13173 265311001933 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 265311001934 RDD family; Region: RDD; pfam06271 265311001935 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 265311001936 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 265311001937 active site 265311001938 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 265311001939 active site 265311001940 catalytic residues [active] 265311001941 metal binding site [ion binding]; metal-binding site 265311001942 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 265311001943 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 265311001944 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 265311001945 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 265311001946 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 265311001947 dimer interface [polypeptide binding]; other site 265311001948 conserved gate region; other site 265311001949 putative PBP binding loops; other site 265311001950 ABC-ATPase subunit interface; other site 265311001951 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 265311001952 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 265311001953 dimer interface [polypeptide binding]; other site 265311001954 conserved gate region; other site 265311001955 putative PBP binding loops; other site 265311001956 ABC-ATPase subunit interface; other site 265311001957 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 265311001958 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 265311001959 Walker A/P-loop; other site 265311001960 ATP binding site [chemical binding]; other site 265311001961 Q-loop/lid; other site 265311001962 ABC transporter signature motif; other site 265311001963 Walker B; other site 265311001964 D-loop; other site 265311001965 H-loop/switch region; other site 265311001966 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 265311001967 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 265311001968 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 265311001969 substrate binding site [chemical binding]; other site 265311001970 hinge regions; other site 265311001971 ADP binding site [chemical binding]; other site 265311001972 catalytic site [active] 265311001973 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 265311001974 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 265311001975 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 265311001976 hypothetical protein; Provisional; Region: PRK06851 265311001977 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 265311001978 Walker A motif; other site 265311001979 ATP binding site [chemical binding]; other site 265311001980 Walker B motif; other site 265311001981 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 265311001982 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 265311001983 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 265311001984 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 265311001985 DNA binding site [nucleotide binding] 265311001986 catalytic residue [active] 265311001987 H2TH interface [polypeptide binding]; other site 265311001988 putative catalytic residues [active] 265311001989 turnover-facilitating residue; other site 265311001990 intercalation triad [nucleotide binding]; other site 265311001991 8OG recognition residue [nucleotide binding]; other site 265311001992 putative reading head residues; other site 265311001993 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 265311001994 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 265311001995 DNA polymerase I; Provisional; Region: PRK05755 265311001996 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 265311001997 active site 265311001998 metal binding site 1 [ion binding]; metal-binding site 265311001999 putative 5' ssDNA interaction site; other site 265311002000 metal binding site 3; metal-binding site 265311002001 metal binding site 2 [ion binding]; metal-binding site 265311002002 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 265311002003 putative DNA binding site [nucleotide binding]; other site 265311002004 putative metal binding site [ion binding]; other site 265311002005 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 265311002006 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 265311002007 active site 265311002008 DNA binding site [nucleotide binding] 265311002009 catalytic site [active] 265311002010 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 265311002011 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 265311002012 active site 265311002013 PHP Thumb interface [polypeptide binding]; other site 265311002014 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 265311002015 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 265311002016 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 265311002017 generic binding surface I; other site 265311002018 generic binding surface II; other site 265311002019 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 265311002020 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 265311002021 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 265311002022 Ligand Binding Site [chemical binding]; other site 265311002023 Fusion glycoprotein F0; Region: Fusion_gly; pfam00523 265311002024 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 265311002025 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 265311002026 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 265311002027 RNA binding surface [nucleotide binding]; other site 265311002028 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 265311002029 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 265311002030 active site 265311002031 nucleotide binding site [chemical binding]; other site 265311002032 HIGH motif; other site 265311002033 KMSKS motif; other site 265311002034 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 265311002035 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 265311002036 active site 265311002037 Domain of unknown function (DUF4479); Region: DUF4479; pfam14794 265311002038 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 265311002039 putative tRNA-binding site [nucleotide binding]; other site 265311002040 EDD domain protein, DegV family; Region: DegV; TIGR00762 265311002041 Uncharacterized protein, DegV family COG1307; Region: DegV; cl19360 265311002042 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 265311002043 putative DNA binding helix; other site 265311002044 metal binding site 2 [ion binding]; metal-binding site 265311002045 metal binding site 1 [ion binding]; metal-binding site 265311002046 dimer interface [polypeptide binding]; other site 265311002047 structural Zn2+ binding site [ion binding]; other site 265311002048 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 265311002049 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 265311002050 tetramer (dimer of dimers) interface [polypeptide binding]; other site 265311002051 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 265311002052 NAD binding site [chemical binding]; other site 265311002053 dimer interface [polypeptide binding]; other site 265311002054 substrate binding site [chemical binding]; other site 265311002055 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 265311002056 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 265311002057 beta and beta' interface [polypeptide binding]; other site 265311002058 beta' and sigma factor interface [polypeptide binding]; other site 265311002059 Zn-binding [ion binding]; other site 265311002060 active site region [active] 265311002061 catalytic site [active] 265311002062 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 265311002063 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 265311002064 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 265311002065 G-loop; other site 265311002066 DNA binding site [nucleotide binding] 265311002067 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 265311002068 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 265311002069 RPB12 interaction site [polypeptide binding]; other site 265311002070 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl19478 265311002071 RPB1 interaction site [polypeptide binding]; other site 265311002072 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 265311002073 RPB10 interaction site [polypeptide binding]; other site 265311002074 RPB11 interaction site [polypeptide binding]; other site 265311002075 RPB3 interaction site [polypeptide binding]; other site 265311002076 Beta-lactamase; Region: Beta-lactamase; pfam00144 265311002077 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 265311002078 core dimer interface [polypeptide binding]; other site 265311002079 peripheral dimer interface [polypeptide binding]; other site 265311002080 L10 interface [polypeptide binding]; other site 265311002081 L11 interface [polypeptide binding]; other site 265311002082 putative EF-Tu interaction site [polypeptide binding]; other site 265311002083 putative EF-G interaction site [polypeptide binding]; other site 265311002084 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 265311002085 23S rRNA interface [nucleotide binding]; other site 265311002086 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 265311002087 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; cl19580 265311002088 Predicted membrane protein [Function unknown]; Region: COG1511 265311002089 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 265311002090 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 265311002091 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 265311002092 Putative lysophospholipase; Region: Hydrolase_4; cl19140 265311002093 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 265311002094 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 265311002095 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 265311002096 mRNA/rRNA interface [nucleotide binding]; other site 265311002097 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 265311002098 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 265311002099 23S rRNA interface [nucleotide binding]; other site 265311002100 L7/L12 interface [polypeptide binding]; other site 265311002101 putative thiostrepton binding site; other site 265311002102 L25 interface [polypeptide binding]; other site 265311002103 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 265311002104 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 265311002105 motif 1; other site 265311002106 active site 265311002107 motif 2; other site 265311002108 motif 3; other site 265311002109 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 265311002110 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 265311002111 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 265311002112 active site 265311002113 motif I; other site 265311002114 motif II; other site 265311002115 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 265311002116 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 265311002117 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 265311002118 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 265311002119 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 265311002120 nucleotide binding site [chemical binding]; other site 265311002121 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 265311002122 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 265311002123 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 265311002124 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 265311002125 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 265311002126 HPr interaction site; other site 265311002127 glycerol kinase (GK) interaction site [polypeptide binding]; other site 265311002128 active site 265311002129 phosphorylation site [posttranslational modification] 265311002130 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 265311002131 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; cl00164 265311002132 active site turn [active] 265311002133 phosphorylation site [posttranslational modification] 265311002134 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 265311002135 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 265311002136 phosphoethanolamine transferase; Provisional; Region: PRK11560 265311002137 elongation factor Tu; Reviewed; Region: PRK00049 265311002138 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 265311002139 G1 box; other site 265311002140 GEF interaction site [polypeptide binding]; other site 265311002141 GTP/Mg2+ binding site [chemical binding]; other site 265311002142 Switch I region; other site 265311002143 G2 box; other site 265311002144 G3 box; other site 265311002145 Switch II region; other site 265311002146 G4 box; other site 265311002147 G5 box; other site 265311002148 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 265311002149 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 265311002150 Antibiotic Binding Site [chemical binding]; other site 265311002151 elongation factor G; Reviewed; Region: PRK00007 265311002152 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 265311002153 G1 box; other site 265311002154 putative GEF interaction site [polypeptide binding]; other site 265311002155 GTP/Mg2+ binding site [chemical binding]; other site 265311002156 Switch I region; other site 265311002157 G2 box; other site 265311002158 G3 box; other site 265311002159 Switch II region; other site 265311002160 G4 box; other site 265311002161 G5 box; other site 265311002162 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 265311002163 Elongation Factor G, domain II; Region: EFG_II; pfam14492 265311002164 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 265311002165 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 265311002166 30S ribosomal protein S7; Validated; Region: PRK05302 265311002167 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 265311002168 S17 interaction site [polypeptide binding]; other site 265311002169 S8 interaction site; other site 265311002170 16S rRNA interaction site [nucleotide binding]; other site 265311002171 streptomycin interaction site [chemical binding]; other site 265311002172 23S rRNA interaction site [nucleotide binding]; other site 265311002173 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 265311002174 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 265311002175 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 265311002176 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 265311002177 putative active site [active] 265311002178 catalytic site [active] 265311002179 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 265311002180 putative active site [active] 265311002181 catalytic site [active] 265311002182 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 265311002183 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 265311002184 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 265311002185 S-adenosylmethionine binding site [chemical binding]; other site 265311002186 peptide chain release factor 1; Validated; Region: prfA; PRK00591 265311002187 14-3-3 domain; Region: 14-3-3; cl02098 265311002188 This domain is found in peptide chain release factors; Region: PCRF; smart00937 265311002189 RF-1 domain; Region: RF-1; pfam00472 265311002190 thymidine kinase; Provisional; Region: PRK04296 265311002191 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 265311002192 DHH family; Region: DHH; pfam01368 265311002193 DHHA1 domain; Region: DHHA1; pfam02272 265311002194 DNA topoisomerase 2-like protein; Provisional; Region: PTZ00108 265311002195 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 265311002196 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 265311002197 intersubunit interface [polypeptide binding]; other site 265311002198 active site 265311002199 catalytic residue [active] 265311002200 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 265311002201 substrate binding site [chemical binding]; other site 265311002202 hexamer interface [polypeptide binding]; other site 265311002203 metal binding site [ion binding]; metal-binding site 265311002204 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 265311002205 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 265311002206 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 265311002207 putative active site [active] 265311002208 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 265311002209 substrate binding site [chemical binding]; other site 265311002210 dimer interface [polypeptide binding]; other site 265311002211 ATP binding site [chemical binding]; other site 265311002212 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 265311002213 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 265311002214 intersubunit interface [polypeptide binding]; other site 265311002215 active site 265311002216 zinc binding site [ion binding]; other site 265311002217 Na+ binding site [ion binding]; other site 265311002218 Predicted membrane protein [Function unknown]; Region: COG1511 265311002219 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 265311002220 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 265311002221 Walker A/P-loop; other site 265311002222 ATP binding site [chemical binding]; other site 265311002223 Q-loop/lid; other site 265311002224 ABC transporter signature motif; other site 265311002225 Walker B; other site 265311002226 D-loop; other site 265311002227 H-loop/switch region; other site 265311002228 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 265311002229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 265311002230 Coenzyme A binding pocket [chemical binding]; other site 265311002231 CTP synthetase; Validated; Region: pyrG; PRK05380 265311002232 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 265311002233 Catalytic site [active] 265311002234 active site 265311002235 UTP binding site [chemical binding]; other site 265311002236 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 265311002237 active site 265311002238 putative oxyanion hole; other site 265311002239 catalytic triad [active] 265311002240 DNA-directed RNA polymerase subunit delta; Reviewed; Region: PRK02363 265311002241 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 265311002242 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 265311002243 Zn2+ binding site [ion binding]; other site 265311002244 Mg2+ binding site [ion binding]; other site 265311002245 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 265311002246 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 265311002247 active site 265311002248 HIGH motif; other site 265311002249 KMSKS motif; other site 265311002250 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 265311002251 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 265311002252 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 265311002253 RAB proteins geranylgeranyltransferase component A (RAB escort protein) [Posttranslational modification, protein turnover, chaperones]; Region: MRS6; cl17678 265311002254 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 265311002255 DNA topoisomerase I; Validated; Region: PRK05582 265311002256 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 265311002257 active site 265311002258 metal binding site [ion binding]; metal-binding site 265311002259 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 265311002260 domain I; other site 265311002261 DNA binding groove [nucleotide binding] 265311002262 phosphate binding site [ion binding]; other site 265311002263 domain II; other site 265311002264 domain III; other site 265311002265 nucleotide binding site [chemical binding]; other site 265311002266 catalytic site [active] 265311002267 domain IV; other site 265311002268 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 265311002269 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 265311002270 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 265311002271 Sulfate transporter family; Region: Sulfate_transp; cl19250 265311002272 Protein of unknown function DUF45; Region: DUF45; pfam01863 265311002273 GTP-binding protein YchF; Reviewed; Region: PRK09601 265311002274 YchF GTPase; Region: YchF; cd01900 265311002275 G1 box; other site 265311002276 GTP/Mg2+ binding site [chemical binding]; other site 265311002277 Switch I region; other site 265311002278 G2 box; other site 265311002279 Switch II region; other site 265311002280 G3 box; other site 265311002281 G4 box; other site 265311002282 G5 box; other site 265311002283 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 265311002284 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 265311002285 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 265311002286 Methyltransferase domain; Region: Methyltransf_31; pfam13847 265311002287 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 265311002288 S-adenosylmethionine binding site [chemical binding]; other site 265311002289 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 265311002290 Amino acid permease; Region: AA_permease_2; pfam13520 265311002291 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 265311002292 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 265311002293 TM-ABC transporter signature motif; other site 265311002294 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 265311002295 TM-ABC transporter signature motif; other site 265311002296 Protein of unknown function (DUF342); Region: DUF342; cl19219 265311002297 Domain of unknown function (DUF947); Region: DUF947; pfam06102 265311002298 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 265311002299 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 265311002300 Walker A/P-loop; other site 265311002301 ATP binding site [chemical binding]; other site 265311002302 Q-loop/lid; other site 265311002303 ABC transporter signature motif; other site 265311002304 Walker B; other site 265311002305 D-loop; other site 265311002306 H-loop/switch region; other site 265311002307 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 265311002308 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 265311002309 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 265311002310 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 265311002311 Histone H1-like nucleoprotein HC2; Region: HC2; cl19298 265311002312 Integration host factor (IHF) and similar proteins; Region: IHF; cd13832 265311002313 dimer interface [polypeptide binding]; other site 265311002314 DNA binding site [nucleotide binding] 265311002315 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 265311002316 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 265311002317 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 265311002318 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 265311002319 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 265311002320 Walker A motif; other site 265311002321 ATP binding site [chemical binding]; other site 265311002322 Walker B motif; other site 265311002323 arginine finger; other site 265311002324 Peptidase family M41; Region: Peptidase_M41; pfam01434 265311002325 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 265311002326 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 265311002327 Ligand Binding Site [chemical binding]; other site 265311002328 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 265311002329 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 265311002330 S-adenosylmethionine binding site [chemical binding]; other site 265311002331 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 265311002332 DNA polymerase III subunit delta'; Validated; Region: PRK08485 265311002333 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 265311002334 thymidylate kinase; Validated; Region: tmk; PRK00698 265311002335 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 265311002336 TMP-binding site; other site 265311002337 ATP-binding site [chemical binding]; other site 265311002338 recombination protein RecR; Reviewed; Region: recR; PRK00076 265311002339 RecR protein; Region: RecR; pfam02132 265311002340 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 265311002341 putative active site [active] 265311002342 putative metal-binding site [ion binding]; other site 265311002343 tetramer interface [polypeptide binding]; other site 265311002344 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 265311002345 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 265311002346 Walker A motif; other site 265311002347 ATP binding site [chemical binding]; other site 265311002348 Walker B motif; other site 265311002349 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; cl18944 265311002350 arginine finger; other site 265311002351 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 265311002352 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 265311002353 nucleoside/Zn binding site; other site 265311002354 dimer interface [polypeptide binding]; other site 265311002355 catalytic motif [active] 265311002356 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 265311002357 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 265311002358 active site 265311002359 motif I; other site 265311002360 motif II; other site 265311002361 putative inner membrane protein translocase component YidC; Provisional; Region: PRK02201 265311002362 Ribonuclease P; Region: Ribonuclease_P; pfam00825 265311002363 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399