-- dump date 20120504_153216 -- class Genbank::misc_feature -- table misc_feature_note -- id note 572263000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 572263000002 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 572263000003 Walker A motif; other site 572263000004 ATP binding site [chemical binding]; other site 572263000005 Walker B motif; other site 572263000006 arginine finger; other site 572263000007 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 572263000008 DnaA box-binding interface [nucleotide binding]; other site 572263000009 DNA polymerase III subunit beta; Provisional; Region: PRK14946 572263000010 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 572263000011 putative DNA binding surface [nucleotide binding]; other site 572263000012 dimer interface [polypeptide binding]; other site 572263000013 beta-clamp/clamp loader binding surface; other site 572263000014 beta-clamp/translesion DNA polymerase binding surface; other site 572263000015 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 572263000016 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 572263000017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263000018 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 572263000019 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 572263000020 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 572263000021 DHH family; Region: DHH; pfam01368 572263000022 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 572263000023 DHH family; Region: DHH; pfam01368 572263000024 DHHA1 domain; Region: DHHA1; pfam02272 572263000025 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07187 572263000026 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 572263000027 Class I ribonucleotide reductase; Region: RNR_I; cd01679 572263000028 active site 572263000029 dimer interface [polypeptide binding]; other site 572263000030 catalytic residues [active] 572263000031 effector binding site; other site 572263000032 R2 peptide binding site; other site 572263000033 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 572263000034 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 572263000035 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 572263000036 dimer interface [polypeptide binding]; other site 572263000037 putative radical transfer pathway; other site 572263000038 diiron center [ion binding]; other site 572263000039 tyrosyl radical; other site 572263000040 Mycoplasma MG185/MG260 protein; Region: Lipoprotein_X; pfam03305 572263000041 Putative mycoplasma lipoprotein, C-terminal region; Region: Lipoprotein_10; pfam03202 572263000042 Mycoplasma MG185/MG260 protein; Region: Lipoprotein_X; pfam03305 572263000043 Putative mycoplasma lipoprotein, C-terminal region; Region: Lipoprotein_10; pfam03202 572263000044 Mycoplasma MG185/MG260 protein; Region: Lipoprotein_X; pfam03305 572263000045 Putative mycoplasma lipoprotein, C-terminal region; Region: Lipoprotein_10; pfam03202 572263000046 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 572263000047 Catalytic site; other site 572263000048 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000049 Walker A/P-loop; other site 572263000050 ATP binding site [chemical binding]; other site 572263000051 Q-loop/lid; other site 572263000052 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000053 ABC transporter signature motif; other site 572263000054 Walker B; other site 572263000055 D-loop; other site 572263000056 H-loop/switch region; other site 572263000057 TOBE domain; Region: TOBE_2; cl01440 572263000058 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 572263000059 dimer interface [polypeptide binding]; other site 572263000060 conserved gate region; other site 572263000061 putative PBP binding loops; other site 572263000062 ABC-ATPase subunit interface; other site 572263000063 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 572263000064 dimer interface [polypeptide binding]; other site 572263000065 conserved gate region; other site 572263000066 putative PBP binding loops; other site 572263000067 ABC-ATPase subunit interface; other site 572263000068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263000069 FAD dependent oxidoreductase; Region: DAO; pfam01266 572263000070 glycerol kinase; Provisional; Region: glpK; PRK00047 572263000071 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 572263000072 N- and C-terminal domain interface [polypeptide binding]; other site 572263000073 active site 572263000074 MgATP binding site [chemical binding]; other site 572263000075 catalytic site [active] 572263000076 metal binding site [ion binding]; metal-binding site 572263000077 glycerol binding site [chemical binding]; other site 572263000078 homotetramer interface [polypeptide binding]; other site 572263000079 homodimer interface [polypeptide binding]; other site 572263000080 FBP binding site [chemical binding]; other site 572263000081 protein IIAGlc interface [polypeptide binding]; other site 572263000082 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 572263000083 amphipathic channel; other site 572263000084 Asn-Pro-Ala signature motifs; other site 572263000085 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; cl15754 572263000086 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 572263000087 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 572263000088 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572263000089 active site 572263000090 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 572263000091 active site 572263000092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263000093 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 572263000094 23S rRNA interface [nucleotide binding]; other site 572263000095 L3 interface [polypeptide binding]; other site 572263000096 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 572263000097 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 572263000098 excinuclease ABC subunit B; Provisional; Region: PRK05298 572263000099 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 572263000100 ATP binding site [chemical binding]; other site 572263000101 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 572263000102 nucleotide binding region [chemical binding]; other site 572263000103 ATP-binding site [chemical binding]; other site 572263000104 Ultra-violet resistance protein B; Region: UvrB; pfam12344 572263000105 UvrB/uvrC motif; Region: UVR; pfam02151 572263000106 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 572263000107 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 572263000108 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 572263000109 Walker A/P-loop; other site 572263000110 ATP binding site [chemical binding]; other site 572263000111 Q-loop/lid; other site 572263000112 ABC transporter signature motif; other site 572263000113 Walker B; other site 572263000114 D-loop; other site 572263000115 H-loop/switch region; other site 572263000116 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 572263000117 S-adenosylmethionine binding site [chemical binding]; other site 572263000118 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 572263000119 interface (dimer of trimers) [polypeptide binding]; other site 572263000120 Substrate-binding/catalytic site; other site 572263000121 Zn-binding sites [ion binding]; other site 572263000122 High affinity transport system protein p37; Region: Mycoplasma_p37; pfam06646 572263000123 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572263000124 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000125 Walker A/P-loop; other site 572263000126 ATP binding site [chemical binding]; other site 572263000127 Q-loop/lid; other site 572263000128 ABC transporter signature motif; other site 572263000129 Walker B; other site 572263000130 D-loop; other site 572263000131 H-loop/switch region; other site 572263000132 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 572263000133 dimer interface [polypeptide binding]; other site 572263000134 conserved gate region; other site 572263000135 ABC-ATPase subunit interface; other site 572263000136 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 572263000137 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 572263000138 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 572263000139 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 572263000140 dimerization interface [polypeptide binding]; other site 572263000141 domain crossover interface; other site 572263000142 redox-dependent activation switch; other site 572263000143 Competence-damaged protein; Region: CinA; cl00666 572263000144 trigger factor; Provisional; Region: tig; PRK01490 572263000145 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 572263000146 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 572263000147 DNA gyrase subunit A; Validated; Region: PRK05560 572263000148 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 572263000149 CAP-like domain; other site 572263000150 active site 572263000151 primary dimer interface [polypeptide binding]; other site 572263000152 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572263000153 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572263000154 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572263000155 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572263000156 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572263000157 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 572263000158 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 572263000159 ATP binding site [chemical binding]; other site 572263000160 Mg2+ binding site [ion binding]; other site 572263000161 G-X-G motif; other site 572263000162 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 572263000163 anchoring element; other site 572263000164 dimer interface [polypeptide binding]; other site 572263000165 ATP binding site [chemical binding]; other site 572263000166 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 572263000167 active site 572263000168 putative metal-binding site [ion binding]; other site 572263000169 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 572263000170 Integrase core domain; Region: rve_3; cl15866 572263000171 LemA family; Region: LemA; cl00742 572263000172 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 572263000173 prolyl-tRNA synthetase; Provisional; Region: PRK08661 572263000174 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_arch_euk; cd00778 572263000175 dimer interface [polypeptide binding]; other site 572263000176 motif 1; other site 572263000177 active site 572263000178 motif 2; other site 572263000179 motif 3; other site 572263000180 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 572263000181 anticodon binding site; other site 572263000182 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 572263000183 catalytic residues [active] 572263000184 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 572263000185 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 572263000186 tetramer interface [polypeptide binding]; other site 572263000187 TPP-binding site [chemical binding]; other site 572263000188 heterodimer interface [polypeptide binding]; other site 572263000189 phosphorylation loop region [posttranslational modification] 572263000190 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 572263000191 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 572263000192 alpha subunit interface [polypeptide binding]; other site 572263000193 TPP binding site [chemical binding]; other site 572263000194 heterodimer interface [polypeptide binding]; other site 572263000195 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572263000196 e3 binding domain; Region: E3_binding; pfam02817 572263000197 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 572263000198 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 572263000199 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 572263000200 E3 interaction surface; other site 572263000201 lipoyl attachment site [posttranslational modification]; other site 572263000202 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 572263000203 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572263000204 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572263000205 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572263000206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000207 Walker A/P-loop; other site 572263000208 ATP binding site [chemical binding]; other site 572263000209 Q-loop/lid; other site 572263000210 ABC transporter signature motif; other site 572263000211 Walker B; other site 572263000212 D-loop; other site 572263000213 H-loop/switch region; other site 572263000214 ABC transporter; Region: ABC_tran; pfam00005 572263000215 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000216 ABC transporter signature motif; other site 572263000217 Walker B; other site 572263000218 D-loop; other site 572263000219 H-loop/switch region; other site 572263000220 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 572263000221 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 572263000222 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 572263000223 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 572263000224 Walker A motif; other site 572263000225 ATP binding site [chemical binding]; other site 572263000226 Walker B motif; other site 572263000227 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 572263000228 arginine finger; other site 572263000229 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 572263000230 Walker A motif; other site 572263000231 ATP binding site [chemical binding]; other site 572263000232 Walker B motif; other site 572263000233 arginine finger; other site 572263000234 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 572263000235 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 572263000236 substrate binding site [chemical binding]; other site 572263000237 dimer interface [polypeptide binding]; other site 572263000238 catalytic triad [active] 572263000239 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 572263000240 16S/18S rRNA binding site [nucleotide binding]; other site 572263000241 S13e-L30e interaction site [polypeptide binding]; other site 572263000242 25S rRNA binding site [nucleotide binding]; other site 572263000243 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 572263000244 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 572263000245 putative nicotinate-nucleotide adenylyltransferase; Validated; Region: nadD; PRK07152 572263000246 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 572263000247 active site 572263000248 (T/H)XGH motif; other site 572263000249 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 572263000250 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 572263000251 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 572263000252 active site 572263000253 motif I; other site 572263000254 motif II; other site 572263000255 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 572263000256 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 572263000257 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 572263000258 Acetokinase family; Region: Acetate_kinase; cl01029 572263000259 propionate/acetate kinase; Provisional; Region: PRK12379 572263000260 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK13964 572263000261 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572263000262 active site 572263000263 nucleotide binding site [chemical binding]; other site 572263000264 HIGH motif; other site 572263000265 KMSKS motif; other site 572263000266 Predicted GTPase [General function prediction only]; Region: COG0218 572263000267 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 572263000268 G1 box; other site 572263000269 GTP/Mg2+ binding site [chemical binding]; other site 572263000270 Switch I region; other site 572263000271 G2 box; other site 572263000272 G3 box; other site 572263000273 Switch II region; other site 572263000274 G4 box; other site 572263000275 G5 box; other site 572263000276 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 572263000277 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 572263000278 HTH-like domain; Region: HTH_21; pfam13276 572263000279 Integrase core domain; Region: rve; cl01316 572263000280 Integrase core domain; Region: rve_3; cl15866 572263000281 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 572263000282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263000283 NAD(P) binding site [chemical binding]; other site 572263000284 LDH/MDH dimer interface [polypeptide binding]; other site 572263000285 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 572263000286 substrate binding site [chemical binding]; other site 572263000287 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 572263000288 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 572263000289 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 572263000290 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 572263000291 phosphate binding site [ion binding]; other site 572263000292 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 572263000293 active site 572263000294 phosphorylation site [posttranslational modification] 572263000295 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 572263000296 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 572263000297 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 572263000298 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 572263000299 TPP-binding site [chemical binding]; other site 572263000300 dimer interface [polypeptide binding]; other site 572263000301 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 572263000302 PYR/PP interface [polypeptide binding]; other site 572263000303 dimer interface [polypeptide binding]; other site 572263000304 TPP binding site [chemical binding]; other site 572263000305 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572263000306 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 572263000307 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 572263000308 active site 572263000309 HIGH motif; other site 572263000310 dimer interface [polypeptide binding]; other site 572263000311 KMSKS motif; other site 572263000312 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 572263000313 endonuclease IV; Provisional; Region: PRK01060 572263000314 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 572263000315 AP (apurinic/apyrimidinic) site pocket; other site 572263000316 DNA interaction; other site 572263000317 Metal-binding active site; metal-binding site 572263000318 Uncharacterized conserved protein [Function unknown]; Region: COG0327 572263000319 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 572263000320 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 572263000321 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 572263000322 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572263000323 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 572263000324 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 572263000325 DNA primase, catalytic core; Region: dnaG; TIGR01391 572263000326 CHC2 zinc finger; Region: zf-CHC2; cl15369 572263000327 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 572263000328 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 572263000329 active site 572263000330 metal binding site [ion binding]; metal-binding site 572263000331 interdomain interaction site; other site 572263000332 glycyl-tRNA synthetase; Provisional; Region: PRK04173 572263000333 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 572263000334 motif 1; other site 572263000335 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 572263000336 motif 1; other site 572263000337 dimer interface [polypeptide binding]; other site 572263000338 active site 572263000339 motif 2; other site 572263000340 motif 3; other site 572263000341 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 572263000342 anticodon binding site; other site 572263000343 signal recognition particle protein; Provisional; Region: PRK10867 572263000344 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 572263000345 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 572263000346 P loop; other site 572263000347 GTP binding site [chemical binding]; other site 572263000348 Signal peptide binding domain; Region: SRP_SPB; pfam02978 572263000349 elongation factor Ts; Provisional; Region: tsf; PRK09377 572263000350 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 572263000351 Elongation factor TS; Region: EF_TS; pfam00889 572263000352 Elongation factor TS; Region: EF_TS; pfam00889 572263000353 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 572263000354 rRNA interaction site [nucleotide binding]; other site 572263000355 S8 interaction site; other site 572263000356 putative laminin-1 binding site; other site 572263000357 Recombination protein U; Region: RecU; cl01314 572263000358 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 572263000359 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 572263000360 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 572263000361 putative acyl-acceptor binding pocket; other site 572263000362 ScpA/B protein; Region: ScpA_ScpB; cl00598 572263000363 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 572263000364 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 572263000365 UGMP family protein; Validated; Region: PRK09604 572263000366 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 572263000367 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; cl15754 572263000368 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 572263000369 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 572263000370 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 572263000371 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 572263000372 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 572263000373 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 572263000374 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 572263000375 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 572263000376 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 572263000377 putative translocon binding site; other site 572263000378 protein-rRNA interface [nucleotide binding]; other site 572263000379 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 572263000380 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 572263000381 G-X-X-G motif; other site 572263000382 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 572263000383 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 572263000384 23S rRNA interface [nucleotide binding]; other site 572263000385 5S rRNA interface [nucleotide binding]; other site 572263000386 putative antibiotic binding site [chemical binding]; other site 572263000387 L25 interface [polypeptide binding]; other site 572263000388 L27 interface [polypeptide binding]; other site 572263000389 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 572263000390 23S rRNA interface [nucleotide binding]; other site 572263000391 putative translocon interaction site; other site 572263000392 signal recognition particle (SRP54) interaction site; other site 572263000393 L23 interface [polypeptide binding]; other site 572263000394 trigger factor interaction site; other site 572263000395 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 572263000396 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 572263000397 KOW motif; Region: KOW; cl00354 572263000398 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 572263000399 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 572263000400 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 572263000401 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 572263000402 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 572263000403 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 572263000404 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 572263000405 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 572263000406 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 572263000407 5S rRNA interface [nucleotide binding]; other site 572263000408 23S rRNA interface [nucleotide binding]; other site 572263000409 L5 interface [polypeptide binding]; other site 572263000410 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 572263000411 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 572263000412 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 572263000413 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 572263000414 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 572263000415 SecY translocase; Region: SecY; pfam00344 572263000416 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 572263000417 adenylate kinase; Reviewed; Region: adk; PRK00279 572263000418 AMP-binding site [chemical binding]; other site 572263000419 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 572263000420 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 572263000421 active site 572263000422 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 572263000423 rRNA binding site [nucleotide binding]; other site 572263000424 predicted 30S ribosome binding site; other site 572263000425 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 572263000426 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 572263000427 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 572263000428 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 572263000429 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 572263000430 alphaNTD homodimer interface [polypeptide binding]; other site 572263000431 alphaNTD - beta interaction site [polypeptide binding]; other site 572263000432 alphaNTD - beta' interaction site [polypeptide binding]; other site 572263000433 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 572263000434 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 572263000435 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 572263000436 putative active site [active] 572263000437 putative catalytic site [active] 572263000438 putative Mg binding site IVb [ion binding]; other site 572263000439 putative phosphate binding site [ion binding]; other site 572263000440 putative DNA binding site [nucleotide binding]; other site 572263000441 putative Mg binding site IVa [ion binding]; other site 572263000442 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 572263000443 HrcA protein C terminal domain; Region: HrcA; pfam01628 572263000444 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 572263000445 dimer interface [polypeptide binding]; other site 572263000446 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 572263000447 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 572263000448 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 572263000449 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 572263000450 active site 572263000451 HIGH motif; other site 572263000452 KMSK motif region; other site 572263000453 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 572263000454 tRNA binding surface [nucleotide binding]; other site 572263000455 anticodon binding site; other site 572263000456 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 572263000457 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 572263000458 hypothetical protein; Provisional; Region: PRK08185 572263000459 intersubunit interface [polypeptide binding]; other site 572263000460 active site 572263000461 zinc binding site [ion binding]; other site 572263000462 Na+ binding site [ion binding]; other site 572263000463 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 572263000464 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 572263000465 active site 572263000466 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 572263000467 Amidase; Region: Amidase; cl11426 572263000468 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 572263000469 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 572263000470 GatB domain; Region: GatB_Yqey; cl11497 572263000471 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572263000472 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572263000473 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 572263000474 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 572263000475 HIGH motif; other site 572263000476 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 572263000477 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572263000478 active site 572263000479 KMSKS motif; other site 572263000480 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 572263000481 tRNA binding surface [nucleotide binding]; other site 572263000482 anticodon binding site; other site 572263000483 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 572263000484 DHH family; Region: DHH; pfam01368 572263000485 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 572263000486 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 572263000487 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 572263000488 replicative DNA helicase; Region: DnaB; TIGR00665 572263000489 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 572263000490 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 572263000491 Walker A motif; other site 572263000492 ATP binding site [chemical binding]; other site 572263000493 Walker B motif; other site 572263000494 DNA binding loops [nucleotide binding] 572263000495 Domain of unknown function DUF21; Region: DUF21; pfam01595 572263000496 FOG: CBS domain [General function prediction only]; Region: COG0517 572263000497 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 572263000498 Protein of unknown function DUF45; Region: DUF45; cl00636 572263000499 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 572263000500 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572263000501 active site 572263000502 HIGH motif; other site 572263000503 nucleotide binding site [chemical binding]; other site 572263000504 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572263000505 active site 572263000506 KMSKS motif; other site 572263000507 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 572263000508 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 572263000509 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 572263000510 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 572263000511 DNA binding residues [nucleotide binding] 572263000512 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 572263000513 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 572263000514 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 572263000515 putative homodimer interface [polypeptide binding]; other site 572263000516 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 572263000517 AAA-like domain; Region: AAA_10; pfam12846 572263000518 Domain of unknown function DUF87; Region: DUF87; pfam01935 572263000519 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 572263000520 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 572263000521 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 572263000522 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 572263000523 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 572263000524 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 572263000525 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 572263000526 ligand binding site [chemical binding]; other site 572263000527 active site 572263000528 UGI interface [polypeptide binding]; other site 572263000529 catalytic site [active] 572263000530 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 572263000531 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 572263000532 oligomer interface [polypeptide binding]; other site 572263000533 active site 572263000534 metal binding site [ion binding]; metal-binding site 572263000535 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 572263000536 pyruvate kinase; Provisional; Region: PRK05826 572263000537 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 572263000538 domain interfaces; other site 572263000539 active site 572263000540 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 572263000541 dimerization domain swap beta strand [polypeptide binding]; other site 572263000542 regulatory protein interface [polypeptide binding]; other site 572263000543 active site 572263000544 regulatory phosphorylation site [posttranslational modification]; other site 572263000545 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 572263000546 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 572263000547 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 572263000548 active site turn [active] 572263000549 phosphorylation site [posttranslational modification] 572263000550 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 572263000551 HPr interaction site; other site 572263000552 glycerol kinase (GK) interaction site [polypeptide binding]; other site 572263000553 active site 572263000554 phosphorylation site [posttranslational modification] 572263000555 Uncharacterized conserved protein [Function unknown]; Region: COG1284 572263000556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263000557 Integrase core domain; Region: rve_3; cl15866 572263000558 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 572263000559 S17 interaction site [polypeptide binding]; other site 572263000560 S8 interaction site; other site 572263000561 16S rRNA interaction site [nucleotide binding]; other site 572263000562 streptomycin interaction site [chemical binding]; other site 572263000563 23S rRNA interaction site [nucleotide binding]; other site 572263000564 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 572263000565 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 572263000566 elongation factor G; Reviewed; Region: PRK12739 572263000567 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 572263000568 G1 box; other site 572263000569 putative GEF interaction site [polypeptide binding]; other site 572263000570 GTP/Mg2+ binding site [chemical binding]; other site 572263000571 Switch I region; other site 572263000572 G2 box; other site 572263000573 G3 box; other site 572263000574 Switch II region; other site 572263000575 G4 box; other site 572263000576 G5 box; other site 572263000577 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 572263000578 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 572263000579 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 572263000580 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 572263000581 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 572263000582 Integrase core domain; Region: rve; cl01316 572263000583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263000584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263000585 DEAD-like helicases superfamily; Region: DEXDc; smart00487 572263000586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000587 mycoides cluster lipoprotein, LppA/P72 family; Region: Mycoplas_LppA; TIGR03490 572263000588 cytidylate kinase; Provisional; Region: cmk; PRK00023 572263000589 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 572263000590 CMP-binding site; other site 572263000591 The sites determining sugar specificity; other site 572263000592 GTP-binding protein Der; Reviewed; Region: PRK00093 572263000593 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 572263000594 G1 box; other site 572263000595 GTP/Mg2+ binding site [chemical binding]; other site 572263000596 Switch I region; other site 572263000597 G2 box; other site 572263000598 Switch II region; other site 572263000599 G3 box; other site 572263000600 G4 box; other site 572263000601 G5 box; other site 572263000602 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 572263000603 G1 box; other site 572263000604 GTP/Mg2+ binding site [chemical binding]; other site 572263000605 Switch I region; other site 572263000606 G2 box; other site 572263000607 G3 box; other site 572263000608 Switch II region; other site 572263000609 G4 box; other site 572263000610 G5 box; other site 572263000611 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 572263000612 IHF - DNA interface [nucleotide binding]; other site 572263000613 IHF dimer interface [polypeptide binding]; other site 572263000614 GTP-binding protein LepA; Provisional; Region: PRK05433 572263000615 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 572263000616 G1 box; other site 572263000617 putative GEF interaction site [polypeptide binding]; other site 572263000618 GTP/Mg2+ binding site [chemical binding]; other site 572263000619 Switch I region; other site 572263000620 G2 box; other site 572263000621 G3 box; other site 572263000622 Switch II region; other site 572263000623 G4 box; other site 572263000624 G5 box; other site 572263000625 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 572263000626 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 572263000627 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 572263000628 Cupin domain; Region: Cupin_2; cl09118 572263000629 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572263000630 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 572263000631 dimer interface [polypeptide binding]; other site 572263000632 conserved gate region; other site 572263000633 putative PBP binding loops; other site 572263000634 ABC-ATPase subunit interface; other site 572263000635 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 572263000636 dimer interface [polypeptide binding]; other site 572263000637 conserved gate region; other site 572263000638 putative PBP binding loops; other site 572263000639 ABC-ATPase subunit interface; other site 572263000640 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 572263000641 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 572263000642 Walker A/P-loop; other site 572263000643 ATP binding site [chemical binding]; other site 572263000644 Q-loop/lid; other site 572263000645 ABC transporter signature motif; other site 572263000646 Walker B; other site 572263000647 D-loop; other site 572263000648 H-loop/switch region; other site 572263000649 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 572263000650 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 572263000651 Walker A/P-loop; other site 572263000652 ATP binding site [chemical binding]; other site 572263000653 Q-loop/lid; other site 572263000654 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 572263000655 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 572263000656 ABC transporter signature motif; other site 572263000657 Walker B; other site 572263000658 D-loop; other site 572263000659 H-loop/switch region; other site 572263000660 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 572263000661 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 572263000662 active site 572263000663 substrate binding site [chemical binding]; other site 572263000664 ATP binding site [chemical binding]; other site 572263000665 activation loop (A-loop); other site 572263000666 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 572263000667 active site 572263000668 zinc binding site [ion binding]; other site 572263000669 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 572263000670 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 572263000671 Walker A/P-loop; other site 572263000672 ATP binding site [chemical binding]; other site 572263000673 Q-loop/lid; other site 572263000674 ABC transporter signature motif; other site 572263000675 Walker B; other site 572263000676 D-loop; other site 572263000677 H-loop/switch region; other site 572263000678 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 572263000679 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000680 Walker A/P-loop; other site 572263000681 ATP binding site [chemical binding]; other site 572263000682 Q-loop/lid; other site 572263000683 ABC transporter signature motif; other site 572263000684 Walker B; other site 572263000685 D-loop; other site 572263000686 H-loop/switch region; other site 572263000687 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 572263000688 SelR domain; Region: SelR; pfam01641 572263000689 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 572263000690 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 572263000691 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 572263000692 RNA binding surface [nucleotide binding]; other site 572263000693 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 572263000694 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 572263000695 P loop; other site 572263000696 GTP binding site [chemical binding]; other site 572263000697 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 572263000698 DNA binding residues [nucleotide binding] 572263000699 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 572263000700 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 572263000701 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 572263000702 catalytic residues [active] 572263000703 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572263000704 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 572263000705 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 572263000706 DNA helicase, putative; Region: TIGR00376 572263000707 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000708 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 572263000709 Family description; Region: UvrD_C_2; cl15862 572263000710 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 572263000711 putative active site [active] 572263000712 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 572263000713 active site 572263000714 dimer interface [polypeptide binding]; other site 572263000715 magnesium binding site [ion binding]; other site 572263000716 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 572263000717 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; cl12060 572263000718 AP (apurinic/apyrimidinic) site pocket; other site 572263000719 DNA interaction; other site 572263000720 Metal-binding active site; metal-binding site 572263000721 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 572263000722 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 572263000723 intersubunit interface [polypeptide binding]; other site 572263000724 active site 572263000725 Zn2+ binding site [ion binding]; other site 572263000726 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 572263000727 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 572263000728 active site 572263000729 motif I; other site 572263000730 motif II; other site 572263000731 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 572263000732 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 572263000733 substrate binding site [chemical binding]; other site 572263000734 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 572263000735 mRNA/rRNA interface [nucleotide binding]; other site 572263000736 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 572263000737 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 572263000738 23S rRNA interface [nucleotide binding]; other site 572263000739 L7/L12 interface [polypeptide binding]; other site 572263000740 putative thiostrepton binding site; other site 572263000741 L25 interface [polypeptide binding]; other site 572263000742 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 572263000743 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 572263000744 putative dimer interface [polypeptide binding]; other site 572263000745 putative anticodon binding site; other site 572263000746 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 572263000747 homodimer interface [polypeptide binding]; other site 572263000748 motif 1; other site 572263000749 motif 2; other site 572263000750 active site 572263000751 motif 3; other site 572263000752 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 572263000753 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000754 Family description; Region: UvrD_C_2; cl15862 572263000755 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 572263000756 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 572263000757 RuvA N terminal domain; Region: RuvA_N; pfam01330 572263000758 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 572263000759 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 572263000760 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 572263000761 Walker A motif; other site 572263000762 ATP binding site [chemical binding]; other site 572263000763 Walker B motif; other site 572263000764 arginine finger; other site 572263000765 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 572263000766 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 572263000767 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 572263000768 active site 572263000769 catalytic site [active] 572263000770 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572263000771 GTPase Era; Reviewed; Region: era; PRK00089 572263000772 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 572263000773 G1 box; other site 572263000774 GTP/Mg2+ binding site [chemical binding]; other site 572263000775 Switch I region; other site 572263000776 G2 box; other site 572263000777 Switch II region; other site 572263000778 G3 box; other site 572263000779 G4 box; other site 572263000780 G5 box; other site 572263000781 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 572263000782 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 572263000783 active site 572263000784 catalytic motif [active] 572263000785 Zn binding site [ion binding]; other site 572263000786 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 572263000787 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 572263000788 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39E; cd02424 572263000789 putative active site [active] 572263000790 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 572263000791 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000792 Walker A/P-loop; other site 572263000793 ATP binding site [chemical binding]; other site 572263000794 Q-loop/lid; other site 572263000795 ABC transporter signature motif; other site 572263000796 Walker B; other site 572263000797 D-loop; other site 572263000798 H-loop/switch region; other site 572263000799 Sulfatase; Region: Sulfatase; cl10460 572263000800 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 572263000801 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 572263000802 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 572263000803 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; cl15754 572263000804 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 572263000805 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 572263000806 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572263000807 catalytic residue [active] 572263000808 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 572263000809 trimerization site [polypeptide binding]; other site 572263000810 active site 572263000811 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 572263000812 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 572263000813 RNA binding surface [nucleotide binding]; other site 572263000814 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 572263000815 active site 572263000816 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 572263000817 Phosphoglycerate kinase; Region: PGK; pfam00162 572263000818 substrate binding site [chemical binding]; other site 572263000819 hinge regions; other site 572263000820 ADP binding site [chemical binding]; other site 572263000821 catalytic site [active] 572263000822 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 572263000823 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 572263000824 MgtE intracellular N domain; Region: MgtE_N; cl15244 572263000825 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 572263000826 Divalent cation transporter; Region: MgtE; cl00786 572263000827 cell division protein MraZ; Reviewed; Region: PRK00326 572263000828 MraZ protein; Region: MraZ; pfam02381 572263000829 MraZ protein; Region: MraZ; pfam02381 572263000830 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 572263000831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263000832 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 572263000833 nucleotide binding site [chemical binding]; other site 572263000834 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 572263000835 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 572263000836 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572263000837 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572263000838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 572263000839 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 572263000840 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 572263000841 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 572263000842 motif 1; other site 572263000843 active site 572263000844 motif 2; other site 572263000845 motif 3; other site 572263000846 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 572263000847 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 572263000848 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 572263000849 putative active site [active] 572263000850 catalytic residue [active] 572263000851 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 572263000852 Ligand Binding Site [chemical binding]; other site 572263000853 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 572263000854 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 572263000855 Walker B motif; other site 572263000856 arginine finger; other site 572263000857 Peptidase family M41; Region: Peptidase_M41; pfam01434 572263000858 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 572263000859 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 572263000860 dimer interface [polypeptide binding]; other site 572263000861 putative anticodon binding site; other site 572263000862 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 572263000863 motif 1; other site 572263000864 active site 572263000865 motif 2; other site 572263000866 motif 3; other site 572263000867 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 572263000868 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 572263000869 active site 572263000870 motif I; other site 572263000871 motif II; other site 572263000872 elongation factor P; Validated; Region: PRK00529 572263000873 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 572263000874 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 572263000875 RNA binding site [nucleotide binding]; other site 572263000876 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 572263000877 RNA binding site [nucleotide binding]; other site 572263000878 transketolase; Reviewed; Region: PRK05899 572263000879 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 572263000880 TPP-binding site [chemical binding]; other site 572263000881 dimer interface [polypeptide binding]; other site 572263000882 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 572263000883 PYR/PP interface [polypeptide binding]; other site 572263000884 dimer interface [polypeptide binding]; other site 572263000885 TPP binding site [chemical binding]; other site 572263000886 Amino acid permease; Region: AA_permease_2; pfam13520 572263000887 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 572263000888 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 572263000889 active site 572263000890 HIGH motif; other site 572263000891 KMSKS motif; other site 572263000892 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 572263000893 tRNA binding surface [nucleotide binding]; other site 572263000894 anticodon binding site; other site 572263000895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263000896 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 572263000897 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 572263000898 active site 572263000899 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 572263000900 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 572263000901 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 572263000902 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000903 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 572263000904 Walker A/P-loop; other site 572263000905 ATP binding site [chemical binding]; other site 572263000906 Q-loop/lid; other site 572263000907 ABC transporter signature motif; other site 572263000908 Walker B; other site 572263000909 D-loop; other site 572263000910 H-loop/switch region; other site 572263000911 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 572263000912 active site 572263000913 substrate binding pocket [chemical binding]; other site 572263000914 homodimer interaction site [polypeptide binding]; other site 572263000915 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 572263000916 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 572263000917 P-loop; other site 572263000918 active site 572263000919 phosphorylation site [posttranslational modification] 572263000920 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 572263000921 active site 572263000922 phosphorylation site [posttranslational modification] 572263000923 Protein of unknown function (DUF402); Region: DUF402; cl00979 572263000924 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 572263000925 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 572263000926 dimerization interface [polypeptide binding]; other site 572263000927 active site 572263000928 metal binding site [ion binding]; metal-binding site 572263000929 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 572263000930 dsRNA binding site [nucleotide binding]; other site 572263000931 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 572263000932 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 572263000933 DAK2 domain; Region: Dak2; cl03685 572263000934 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 572263000935 Protein of unknown function (DUF2714); Region: DUF2714; pfam10896 572263000936 F0F1 ATP synthase subunit alpha; Validated; Region: PRK07165 572263000937 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000938 Walker A motif; other site 572263000939 ATP binding site [chemical binding]; other site 572263000940 Walker B motif; other site 572263000941 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 572263000942 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 572263000943 alpha subunit interaction interface [polypeptide binding]; other site 572263000944 Walker A motif; other site 572263000945 ATP binding site [chemical binding]; other site 572263000946 Walker B motif; other site 572263000947 inhibitor binding site; inhibition site 572263000948 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 572263000949 Putative peptidase (DUF31); Region: DUF31; pfam01732 572263000950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 572263000951 Putative peptidase (DUF31); Region: DUF31; pfam01732 572263000952 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 572263000953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000954 Walker A motif; other site 572263000955 ATP binding site [chemical binding]; other site 572263000956 Walker B motif; other site 572263000957 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 572263000958 dimer interface [polypeptide binding]; other site 572263000959 ssDNA binding site [nucleotide binding]; other site 572263000960 tetramer (dimer of dimers) interface [polypeptide binding]; other site 572263000961 AAA-like domain; Region: AAA_10; pfam12846 572263000962 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 572263000963 replicative DNA helicase; Region: DnaB; TIGR00665 572263000964 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 572263000965 Walker A motif; other site 572263000966 ATP binding site [chemical binding]; other site 572263000967 Walker B motif; other site 572263000968 DNA binding loops [nucleotide binding] 572263000969 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 572263000970 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 572263000971 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 572263000972 P-loop; other site 572263000973 Magnesium ion binding site [ion binding]; other site 572263000974 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 572263000975 Magnesium ion binding site [ion binding]; other site 572263000976 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 572263000977 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572263000978 putative active site [active] 572263000979 metal binding site [ion binding]; metal-binding site 572263000980 homodimer binding site [polypeptide binding]; other site 572263000981 S-adenosylmethionine synthetase; Validated; Region: PRK05250 572263000982 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 572263000983 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 572263000984 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 572263000985 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 572263000986 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 572263000987 DNA polymerase III subunit delta'; Validated; Region: PRK07132 572263000988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263000989 thymidylate kinase; Validated; Region: tmk; PRK00698 572263000990 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 572263000991 TMP-binding site; other site 572263000992 ATP-binding site [chemical binding]; other site 572263000993 recombination protein RecR; Reviewed; Region: recR; PRK00076 572263000994 RecR protein; Region: RecR; pfam02132 572263000995 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 572263000996 active site 572263000997 metal binding site [ion binding]; metal-binding site 572263000998 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 572263000999 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07133 572263001000 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 572263001001 Walker A motif; other site 572263001002 ATP binding site [chemical binding]; other site 572263001003 Walker B motif; other site 572263001004 arginine finger; other site 572263001005 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 572263001006 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 572263001007 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 572263001008 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 572263001009 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 572263001010 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 572263001011 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 572263001012 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 572263001013 conserved cys residue [active] 572263001014 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 572263001015 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 572263001016 active site 572263001017 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 572263001018 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 572263001019 active site 572263001020 substrate binding site [chemical binding]; other site 572263001021 metal binding site [ion binding]; metal-binding site 572263001022 seryl-tRNA synthetase; Provisional; Region: PRK05431 572263001023 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 572263001024 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 572263001025 dimer interface [polypeptide binding]; other site 572263001026 active site 572263001027 motif 1; other site 572263001028 motif 2; other site 572263001029 motif 3; other site 572263001030 enolase; Provisional; Region: eno; PRK00077 572263001031 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 572263001032 dimer interface [polypeptide binding]; other site 572263001033 metal binding site [ion binding]; metal-binding site 572263001034 substrate binding pocket [chemical binding]; other site 572263001035 SGNH_hydrolase, or GDSL_hydrolase, is 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 active site closely...; Region: SGNH_hydrolase; cl01053 572263001036 active site 572263001037 catalytic triad [active] 572263001038 oxyanion hole [active] 572263001039 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 572263001040 HTH-like domain; Region: HTH_21; pfam13276 572263001041 Integrase core domain; Region: rve; cl01316 572263001042 Integrase core domain; Region: rve_3; cl15866 572263001043 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 572263001044 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 572263001045 DNA binding site [nucleotide binding] 572263001046 catalytic residue [active] 572263001047 H2TH interface [polypeptide binding]; other site 572263001048 putative catalytic residues [active] 572263001049 turnover-facilitating residue; other site 572263001050 intercalation triad [nucleotide binding]; other site 572263001051 8OG recognition residue [nucleotide binding]; other site 572263001052 putative reading head residues; other site 572263001053 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 572263001054 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 572263001055 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 572263001056 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 572263001057 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 572263001058 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 572263001059 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 572263001060 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 572263001061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263001062 potential frameshift: common BLAST hit: gi|161870103|ref|YP_001599273.1| putative type I restriction enzyme 572263001063 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 572263001064 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 572263001065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263001066 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 572263001067 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 572263001068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263001069 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572263001070 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 572263001071 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 572263001072 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 572263001073 DNA binding site [nucleotide binding] 572263001074 Int/Topo IB signature motif; other site 572263001075 active site 572263001076 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 572263001077 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 572263001078 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 572263001079 lipoyl attachment site [posttranslational modification]; other site 572263001080 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 572263001081 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 572263001082 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 572263001083 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 572263001084 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 572263001085 putative active site [active] 572263001086 putative FMN binding site [chemical binding]; other site 572263001087 putative substrate binding site [chemical binding]; other site 572263001088 putative catalytic residue [active] 572263001089 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 572263001090 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 572263001091 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572263001092 active site 572263001093 50S ribosomal protein L20/unknown domain fusion protein; Provisional; Region: PRK14537 572263001094 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 572263001095 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572263001096 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 572263001097 dimer interface [polypeptide binding]; other site 572263001098 conserved gate region; other site 572263001099 putative PBP binding loops; other site 572263001100 ABC-ATPase subunit interface; other site 572263001101 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 572263001102 Swi5; Region: Swi5; pfam07061 572263001103 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 572263001104 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 572263001105 Walker A/P-loop; other site 572263001106 ATP binding site [chemical binding]; other site 572263001107 Q-loop/lid; other site 572263001108 ABC transporter signature motif; other site 572263001109 Walker B; other site 572263001110 D-loop; other site 572263001111 H-loop/switch region; other site 572263001112 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 572263001113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263001114 Walker A/P-loop; other site 572263001115 ATP binding site [chemical binding]; other site 572263001116 Q-loop/lid; other site 572263001117 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 572263001118 ABC transporter signature motif; other site 572263001119 Walker B; other site 572263001120 D-loop; other site 572263001121 H-loop/switch region; other site 572263001122 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 572263001123 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 572263001124 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 572263001125 oligoendopeptidase F; Region: pepF; TIGR00181 572263001126 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 572263001127 active site 572263001128 Zn binding site [ion binding]; other site 572263001129 Putative peptidase (DUF31); Region: DUF31; pfam01732 572263001130 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 572263001131 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 572263001132 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 572263001133 active site 572263001134 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 572263001135 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 572263001136 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 572263001137 active site 572263001138 motif I; other site 572263001139 motif II; other site 572263001140 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 572263001141 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 572263001142 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 572263001143 dimer interface [polypeptide binding]; other site 572263001144 ssDNA binding site [nucleotide binding]; other site 572263001145 tetramer (dimer of dimers) interface [polypeptide binding]; other site 572263001146 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 572263001147 GTP-binding protein YchF; Reviewed; Region: PRK09601 572263001148 YchF GTPase; Region: YchF; cd01900 572263001149 G1 box; other site 572263001150 GTP/Mg2+ binding site [chemical binding]; other site 572263001151 Switch I region; other site 572263001152 G2 box; other site 572263001153 Switch II region; other site 572263001154 G3 box; other site 572263001155 G4 box; other site 572263001156 G5 box; other site 572263001157 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 572263001158 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 572263001159 dimer interface [polypeptide binding]; other site 572263001160 catalytic triad [active] 572263001161 peroxidatic and resolving cysteines [active] 572263001162 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 572263001163 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 572263001164 active site 572263001165 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 572263001166 dimerization interface [polypeptide binding]; other site 572263001167 DPS ferroxidase diiron center [ion binding]; other site 572263001168 ion pore; other site 572263001169 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 572263001170 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 572263001171 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 572263001172 FtsX-like permease family; Region: FtsX; cl15850 572263001173 FtsX-like permease family; Region: FtsX; cl15850 572263001174 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572263001175 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 572263001176 Walker A/P-loop; other site 572263001177 ATP binding site [chemical binding]; other site 572263001178 Q-loop/lid; other site 572263001179 ABC transporter signature motif; other site 572263001180 Walker B; other site 572263001181 D-loop; other site 572263001182 H-loop/switch region; other site 572263001183 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13632 572263001184 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 572263001185 Walker A/P-loop; other site 572263001186 ATP binding site [chemical binding]; other site 572263001187 Q-loop/lid; other site 572263001188 ABC transporter signature motif; other site 572263001189 Walker B; other site 572263001190 D-loop; other site 572263001191 H-loop/switch region; other site 572263001192 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13651 572263001193 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 572263001194 Walker A/P-loop; other site 572263001195 ATP binding site [chemical binding]; other site 572263001196 Q-loop/lid; other site 572263001197 ABC transporter signature motif; other site 572263001198 Walker B; other site 572263001199 D-loop; other site 572263001200 H-loop/switch region; other site 572263001201 Cobalt transport protein; Region: CbiQ; cl00463 572263001202 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 572263001203 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 572263001204 nucleotide binding pocket [chemical binding]; other site 572263001205 K-X-D-G motif; other site 572263001206 catalytic site [active] 572263001207 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 572263001208 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 572263001209 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 572263001210 Dimer interface [polypeptide binding]; other site 572263001211 BRCT sequence motif; other site 572263001212 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 572263001213 Chromate transporter; Region: Chromate_transp; pfam02417 572263001214 Chromate transporter; Region: Chromate_transp; pfam02417 572263001215 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 572263001216 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 572263001217 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 572263001218 Phage-related protein [Function unknown]; Region: COG4695; cl01923 572263001219 Phage portal protein; Region: Phage_portal; pfam04860 572263001220 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 572263001221 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 572263001222 Walker A motif; other site 572263001223 ATP binding site [chemical binding]; other site 572263001224 Walker B motif; other site 572263001225 arginine finger; other site 572263001226 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 572263001227 Phage Terminase; Region: Terminase_1; pfam03354 572263001228 Phage terminase, small subunit; Region: Terminase_4; cl01525 572263001229 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; cl15754 572263001230 cofactor binding site; other site 572263001231 DNA binding site [nucleotide binding] 572263001232 substrate interaction site [chemical binding]; other site 572263001233 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 572263001234 polymerase nucleotide-binding site; other site 572263001235 DNA-binding residues [nucleotide binding]; DNA binding site 572263001236 nucleotide binding site [chemical binding]; other site 572263001237 primase nucleotide-binding site [nucleotide binding]; other site 572263001238 D5 N terminal like; Region: D5_N; cl07360 572263001239 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 572263001240 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 572263001241 hypothetical protein; Provisional; Region: PRK07143 572263001242 hypothetical protein; Provisional; Region: PRK07143 572263001243 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572263001244 active site 572263001245 nucleotide binding site [chemical binding]; other site 572263001246 HIGH motif; other site 572263001247 KMSKS motif; other site 572263001248 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 572263001249 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 572263001250 active site 572263001251 motif I; other site 572263001252 motif II; other site 572263001253 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 572263001254 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02193 572263001255 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 572263001256 RNA binding site [nucleotide binding]; other site 572263001257 active site 572263001258 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 572263001259 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 572263001260 putative tRNA-binding site [nucleotide binding]; other site 572263001261 B3/4 domain; Region: B3_4; cl11458 572263001262 tRNA synthetase B5 domain; Region: B5; cl08394 572263001263 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 572263001264 motif 1; other site 572263001265 dimer interface [polypeptide binding]; other site 572263001266 active site 572263001267 motif 3; other site 572263001268 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 572263001269 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 572263001270 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 572263001271 dimer interface [polypeptide binding]; other site 572263001272 motif 1; other site 572263001273 active site 572263001274 motif 2; other site 572263001275 motif 3; other site 572263001276 Amino acid permease; Region: AA_permease; pfam00324 572263001277 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 572263001278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263001279 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572263001280 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 572263001281 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 572263001282 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 572263001283 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 572263001284 putative active site [active] 572263001285 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 572263001286 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 572263001287 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 572263001288 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 572263001289 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 572263001290 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 572263001291 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 572263001292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263001293 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572263001294 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572263001295 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 572263001296 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 572263001297 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 572263001298 active site 572263001299 phosphorylation site [posttranslational modification] 572263001300 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 572263001301 P-loop; other site 572263001302 active site 572263001303 phosphorylation site [posttranslational modification] 572263001304 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 572263001305 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 572263001306 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 572263001307 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 572263001308 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572263001309 active site 572263001310 HIGH motif; other site 572263001311 nucleotide binding site [chemical binding]; other site 572263001312 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572263001313 active site 572263001314 KMSKS motif; other site 572263001315 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 572263001316 tRNA binding surface [nucleotide binding]; other site 572263001317 anticodon binding site; other site 572263001318 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 572263001319 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 572263001320 CAP-like domain; other site 572263001321 active site 572263001322 primary dimer interface [polypeptide binding]; other site 572263001323 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 572263001324 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 572263001325 ATP binding site [chemical binding]; other site 572263001326 Mg2+ binding site [ion binding]; other site 572263001327 G-X-G motif; other site 572263001328 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 572263001329 anchoring element; other site 572263001330 dimer interface [polypeptide binding]; other site 572263001331 ATP binding site [chemical binding]; other site 572263001332 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 572263001333 active site 572263001334 putative metal-binding site [ion binding]; other site 572263001335 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 572263001336 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 572263001337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263001338 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 572263001339 5'-3' exonuclease; Provisional; Region: PRK14976 572263001340 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 572263001341 active site 572263001342 metal binding site 1 [ion binding]; metal-binding site 572263001343 putative 5' ssDNA interaction site; other site 572263001344 metal binding site 3; metal-binding site 572263001345 metal binding site 2 [ion binding]; metal-binding site 572263001346 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 572263001347 putative DNA binding site [nucleotide binding]; other site 572263001348 putative metal binding site [ion binding]; other site 572263001349 DNA polymerase III DnaE; Validated; Region: dnaE; PRK07135 572263001350 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 572263001351 Ribosome-binding factor A; Region: RBFA; cl00542 572263001352 translation initiation factor IF-2; Region: IF-2; TIGR00487 572263001353 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 572263001354 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 572263001355 G1 box; other site 572263001356 putative GEF interaction site [polypeptide binding]; other site 572263001357 GTP/Mg2+ binding site [chemical binding]; other site 572263001358 Switch I region; other site 572263001359 G2 box; other site 572263001360 G3 box; other site 572263001361 Switch II region; other site 572263001362 G4 box; other site 572263001363 G5 box; other site 572263001364 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 572263001365 Translation-initiation factor 2; Region: IF-2; pfam11987 572263001366 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 572263001367 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 572263001368 putative RNA binding cleft [nucleotide binding]; other site 572263001369 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 572263001370 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 572263001371 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 572263001372 G-X-X-G motif; other site 572263001373 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 572263001374 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 572263001375 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 572263001376 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 572263001377 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572263001378 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572263001379 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 572263001380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263001381 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572263001382 elongation factor Tu; Reviewed; Region: PRK12736 572263001383 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 572263001384 G1 box; other site 572263001385 GEF interaction site [polypeptide binding]; other site 572263001386 GTP/Mg2+ binding site [chemical binding]; other site 572263001387 Switch I region; other site 572263001388 G2 box; other site 572263001389 G3 box; other site 572263001390 Switch II region; other site 572263001391 G4 box; other site 572263001392 G5 box; other site 572263001393 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 572263001394 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 572263001395 Antibiotic Binding Site [chemical binding]; other site 572263001396 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 572263001397 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 572263001398 Walker A motif; other site 572263001399 ATP binding site [chemical binding]; other site 572263001400 Walker B motif; other site 572263001401 arginine finger; other site 572263001402 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 572263001403 Caveolin; Region: Caveolin; pfam01146 572263001404 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572263001405 active site 572263001406 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 572263001407 intersubunit interface [polypeptide binding]; other site 572263001408 active site 572263001409 catalytic residue [active] 572263001410 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 572263001411 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 572263001412 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 572263001413 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 572263001414 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 572263001415 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 572263001416 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 572263001417 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 572263001418 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 572263001419 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 572263001420 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12903 572263001421 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 572263001422 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263001423 SGNH_hydrolase, or GDSL_hydrolase, is 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 active site closely...; Region: SGNH_hydrolase; cd00229 572263001424 active site 572263001425 catalytic triad [active] 572263001426 oxyanion hole [active] 572263001427 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 572263001428 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572263001429 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572263001430 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 572263001431 active site 572263001432 ADP/pyrophosphate binding site [chemical binding]; other site 572263001433 dimerization interface [polypeptide binding]; other site 572263001434 allosteric effector site; other site 572263001435 fructose-1,6-bisphosphate binding site; other site 572263001436 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 572263001437 dUTPase; Region: dUTPase_2; pfam08761 572263001438 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 572263001439 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 572263001440 GTP/Mg2+ binding site [chemical binding]; other site 572263001441 G4 box; other site 572263001442 G5 box; other site 572263001443 G1 box; other site 572263001444 Switch I region; other site 572263001445 G2 box; other site 572263001446 G3 box; other site 572263001447 Switch II region; other site 572263001448 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 572263001449 SmpB-tmRNA interface; other site 572263001450 Staphylococcal nuclease homologues; Region: SNc; smart00318 572263001451 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 572263001452 Catalytic site; other site 572263001453 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 572263001454 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 572263001455 Walker A/P-loop; other site 572263001456 ATP binding site [chemical binding]; other site 572263001457 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 572263001458 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 572263001459 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 572263001460 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 572263001461 ATP binding site [chemical binding]; other site 572263001462 Q-loop/lid; other site 572263001463 ABC transporter signature motif; other site 572263001464 Walker B; other site 572263001465 D-loop; other site 572263001466 H-loop/switch region; other site 572263001467 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 572263001468 active site 572263001469 catalytic residues [active] 572263001470 CTP synthetase; Validated; Region: pyrG; PRK05380 572263001471 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 572263001472 Catalytic site [active] 572263001473 active site 572263001474 UTP binding site [chemical binding]; other site 572263001475 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 572263001476 active site 572263001477 putative oxyanion hole; other site 572263001478 catalytic triad [active] 572263001479 Amino acid permease; Region: AA_permease_2; pfam13520 572263001480 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 572263001481 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 572263001482 dimer interface [polypeptide binding]; other site 572263001483 anticodon binding site; other site 572263001484 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 572263001485 motif 1; other site 572263001486 dimer interface [polypeptide binding]; other site 572263001487 active site 572263001488 motif 2; other site 572263001489 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 572263001490 active site 572263001491 motif 3; other site 572263001492 histidyl-tRNA synthetase; Region: hisS; TIGR00442 572263001493 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 572263001494 dimer interface [polypeptide binding]; other site 572263001495 motif 1; other site 572263001496 active site 572263001497 motif 2; other site 572263001498 motif 3; other site 572263001499 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 572263001500 Protein export membrane protein; Region: SecD_SecF; cl14618 572263001501 Protein export membrane protein; Region: SecD_SecF; cl14618 572263001502 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 572263001503 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 572263001504 dimer interface [polypeptide binding]; other site 572263001505 glycine-pyridoxal phosphate binding site [chemical binding]; other site 572263001506 active site 572263001507 folate binding site [chemical binding]; other site 572263001508 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 572263001509 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 572263001510 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 572263001511 dimer interface [polypeptide binding]; other site 572263001512 conserved gate region; other site 572263001513 putative PBP binding loops; other site 572263001514 ABC-ATPase subunit interface; other site 572263001515 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263001516 AAA domain; Region: AAA_21; pfam13304 572263001517 Walker A/P-loop; other site 572263001518 ATP binding site [chemical binding]; other site 572263001519 Q-loop/lid; other site 572263001520 ABC transporter signature motif; other site 572263001521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263001522 ABC transporter signature motif; other site 572263001523 Walker B; other site 572263001524 D-loop; other site 572263001525 H-loop/switch region; other site 572263001526 TOBE domain; Region: TOBE_2; cl01440 572263001527 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 572263001528 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 572263001529 putative active site [active] 572263001530 putative metal binding site [ion binding]; other site 572263001531 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 572263001532 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 572263001533 HIT family signature motif; other site 572263001534 catalytic residue [active] 572263001535 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 572263001536 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 572263001537 active site 572263001538 motif I; other site 572263001539 motif II; other site 572263001540 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263001541 active site 572263001542 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 572263001543 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 572263001544 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263001545 Walker A/P-loop; other site 572263001546 ATP binding site [chemical binding]; other site 572263001547 Q-loop/lid; other site 572263001548 ABC transporter signature motif; other site 572263001549 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 572263001550 ABC transporter; Region: ABC_tran_2; pfam12848 572263001551 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 572263001552 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 572263001553 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 572263001554 trmE is a tRNA modification GTPase; Region: trmE; cd04164 572263001555 G1 box; other site 572263001556 GTP/Mg2+ binding site [chemical binding]; other site 572263001557 Switch I region; other site 572263001558 G2 box; other site 572263001559 Switch II region; other site 572263001560 G3 box; other site 572263001561 G4 box; other site 572263001562 G5 box; other site 572263001563 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 572263001564 Protein of unknown function DUF262; Region: DUF262; cl14890 572263001565 Protein of unknown function DUF262; Region: DUF262; cl14890 572263001566 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cd00719 572263001567 GIY-YIG motif/motif A; other site 572263001568 active site 572263001569 catalytic site [active] 572263001570 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 572263001571 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; cl15754 572263001572 cofactor binding site; other site 572263001573 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; cl15754 572263001574 DNA binding site [nucleotide binding] 572263001575 substrate interaction site [chemical binding]; other site 572263001576 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 572263001577 NAD synthase; Region: NAD_synthase; pfam02540 572263001578 homodimer interface [polypeptide binding]; other site 572263001579 NAD binding pocket [chemical binding]; other site 572263001580 ATP binding pocket [chemical binding]; other site 572263001581 Mg binding site [ion binding]; other site 572263001582 active-site loop [active] 572263001583 Transcriptional regulator; Region: Transcrip_reg; cl00361 572263001584 hypothetical protein; Provisional; Region: PRK06148 572263001585 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 572263001586 active site 572263001587 tetramer interface; other site 572263001588 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 572263001589 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 572263001590 NAD binding site [chemical binding]; other site 572263001591 dimer interface [polypeptide binding]; other site 572263001592 tetramer (dimer of dimers) interface [polypeptide binding]; other site 572263001593 substrate binding site [chemical binding]; other site 572263001594 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 572263001595 Mycoplasma MFS transporter; Region: MFS_Mycoplasma; pfam07672 572263001596 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 572263001597 DNA photolyase; Region: DNA_photolyase; pfam00875 572263001598 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 572263001599 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572263001600 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; cl02331 572263001601 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 572263001602 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 572263001603 HSP70 interaction site [polypeptide binding]; other site 572263001604 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 572263001605 Zn binding sites [ion binding]; other site 572263001606 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 572263001607 dimer interface [polypeptide binding]; other site 572263001608 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 572263001609 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 572263001610 GIY-YIG motif/motif A; other site 572263001611 active site 572263001612 catalytic site [active] 572263001613 putative DNA binding site [nucleotide binding]; other site 572263001614 metal binding site [ion binding]; metal-binding site 572263001615 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 572263001616 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 572263001617 Recombination protein O N terminal; Region: RecO_N; cl15812 572263001618 DNA repair protein RecO; Region: reco; TIGR00613 572263001619 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional; Region: PRK14966 572263001620 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 572263001621 S-adenosylmethionine binding site [chemical binding]; other site 572263001622 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 572263001623 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 572263001624 catalytic site [active] 572263001625 G-X2-G-X-G-K; other site 572263001626 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 572263001627 GTPase RsgA; Reviewed; Region: PRK00098 572263001628 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 572263001629 RNA binding site [nucleotide binding]; other site 572263001630 homodimer interface [polypeptide binding]; other site 572263001631 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 572263001632 GTPase/Zn-binding domain interface [polypeptide binding]; other site 572263001633 GTP/Mg2+ binding site [chemical binding]; other site 572263001634 G4 box; other site 572263001635 G5 box; other site 572263001636 G1 box; other site 572263001637 Switch I region; other site 572263001638 G2 box; other site 572263001639 G3 box; other site 572263001640 Switch II region; other site 572263001641 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 572263001642 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 572263001643 substrate binding site [chemical binding]; other site 572263001644 hexamer interface [polypeptide binding]; other site 572263001645 metal binding site [ion binding]; metal-binding site 572263001646 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 572263001647 Transposase [DNA replication, recombination, and repair]; Region: COG5421 572263001648 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; cl15754 572263001649 DNA binding site [nucleotide binding] 572263001650 substrate interaction site [chemical binding]; other site 572263001651 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 572263001652 active site 572263001653 phosphorylation site [posttranslational modification] 572263001654 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 572263001655 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 572263001656 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 572263001657 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 572263001658 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 572263001659 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 572263001660 active site 572263001661 P-loop; other site 572263001662 phosphorylation site [posttranslational modification] 572263001663 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 572263001664 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 572263001665 putative active site [active] 572263001666 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 572263001667 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 572263001668 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 572263001669 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 572263001670 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 572263001671 alpha subunit interaction interface [polypeptide binding]; other site 572263001672 Walker A motif; other site 572263001673 ATP binding site [chemical binding]; other site 572263001674 Walker B motif; other site 572263001675 inhibitor binding site; inhibition site 572263001676 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 572263001677 ATP synthase; Region: ATP-synt; cl00365 572263001678 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 572263001679 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 572263001680 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 572263001681 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 572263001682 beta subunit interaction interface [polypeptide binding]; other site 572263001683 Walker A motif; other site 572263001684 ATP binding site [chemical binding]; other site 572263001685 Walker B motif; other site 572263001686 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 572263001687 Plant ATP synthase F0; Region: YMF19; cl07975 572263001688 ATP synthase subunit C; Region: ATP-synt_C; cl00466 572263001689 ATP synthase A chain; Region: ATP-synt_A; cl00413 572263001690 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 572263001691 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 572263001692 active site 572263001693 DNA binding site [nucleotide binding] 572263001694 Phosphopantetheine attachment site; Region: PP-binding; cl09936 572263001695 GTPase CgtA; Reviewed; Region: obgE; PRK12297 572263001696 GTP1/OBG; Region: GTP1_OBG; pfam01018 572263001697 Obg GTPase; Region: Obg; cd01898 572263001698 G1 box; other site 572263001699 GTP/Mg2+ binding site [chemical binding]; other site 572263001700 Switch I region; other site 572263001701 G2 box; other site 572263001702 G3 box; other site 572263001703 Switch II region; other site 572263001704 G4 box; other site 572263001705 G5 box; other site 572263001706 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 572263001707 Phosphotransferase enzyme family; Region: APH; pfam01636 572263001708 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 572263001709 active site 572263001710 ATP binding site [chemical binding]; other site 572263001711 substrate binding site [chemical binding]; other site 572263001712 dimer interface [polypeptide binding]; other site 572263001713 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 572263001714 protein RecA; Region: tigrfam_recA; TIGR02012 572263001715 hexamer interface [polypeptide binding]; other site 572263001716 Walker A motif; other site 572263001717 ATP binding site [chemical binding]; other site 572263001718 Walker B motif; other site 572263001719 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 572263001720 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 572263001721 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 572263001722 putative active site [active] 572263001723 catalytic site [active] 572263001724 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 572263001725 putative active site [active] 572263001726 catalytic site [active] 572263001727 Preprotein translocase SecG subunit; Region: SecG; cl09123 572263001728 ribonuclease R; Region: RNase_R; TIGR02063 572263001729 RNB domain; Region: RNB; pfam00773 572263001730 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 572263001731 RNA binding site [nucleotide binding]; other site 572263001732 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 572263001733 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 572263001734 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 572263001735 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 572263001736 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 572263001737 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 572263001738 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 572263001739 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 572263001740 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 572263001741 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 572263001742 active site 572263001743 dimer interface [polypeptide binding]; other site 572263001744 motif 1; other site 572263001745 motif 2; other site 572263001746 motif 3; other site 572263001747 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 572263001748 anticodon binding site; other site 572263001749 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 572263001750 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 572263001751 active site 572263001752 HIGH motif; other site 572263001753 dimer interface [polypeptide binding]; other site 572263001754 KMSKS motif; other site 572263001755 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 572263001756 active site turn [active] 572263001757 phosphorylation site [posttranslational modification] 572263001758 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 572263001759 Family description; Region: UvrD_C_2; cl15862 572263001760 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 572263001761 RNA/DNA hybrid binding site [nucleotide binding]; other site 572263001762 active site 572263001763 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 572263001764 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 572263001765 Sulfatase; Region: Sulfatase; cl10460 572263001766 ZIP Zinc transporter; Region: Zip; pfam02535 572263001767 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 572263001768 putative nucleotide binding site [chemical binding]; other site 572263001769 uridine monophosphate binding site [chemical binding]; other site 572263001770 homohexameric interface [polypeptide binding]; other site 572263001771 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cl00240 572263001772 hinge region; other site 572263001773 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 572263001774 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 572263001775 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 572263001776 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 572263001777 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 572263001778 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 572263001779 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 572263001780 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 572263001781 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 572263001782 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 572263001783 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 572263001784 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 572263001785 G-loop; other site 572263001786 DNA binding site [nucleotide binding] 572263001787 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 572263001788 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 572263001789 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 572263001790 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 572263001791 RPB1 interaction site [polypeptide binding]; other site 572263001792 RPB10 interaction site [polypeptide binding]; other site 572263001793 RPB11 interaction site [polypeptide binding]; other site 572263001794 RPB3 interaction site [polypeptide binding]; other site 572263001795 RPB12 interaction site [polypeptide binding]; other site 572263001796 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 572263001797 core dimer interface [polypeptide binding]; other site 572263001798 peripheral dimer interface [polypeptide binding]; other site 572263001799 L10 interface [polypeptide binding]; other site 572263001800 L11 interface [polypeptide binding]; other site 572263001801 putative EF-Tu interaction site [polypeptide binding]; other site 572263001802 putative EF-G interaction site [polypeptide binding]; other site 572263001803 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 572263001804 23S rRNA interface [nucleotide binding]; other site 572263001805 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 572263001806 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 572263001807 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 572263001808 ribosomal protein L20; Region: rpl20; CHL00068 572263001809 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 572263001810 23S rRNA binding site [nucleotide binding]; other site 572263001811 L21 binding site [polypeptide binding]; other site 572263001812 L13 binding site [polypeptide binding]; other site 572263001813 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 572263001814 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 572263001815 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 572263001816 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 572263001817 thymidine kinase; Provisional; Region: PRK04296 572263001818 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 572263001819 TM-ABC transporter signature motif; other site 572263001820 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 572263001821 TM-ABC transporter signature motif; other site 572263001822 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 572263001823 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 572263001824 Walker A/P-loop; other site 572263001825 ATP binding site [chemical binding]; other site 572263001826 Q-loop/lid; other site 572263001827 ABC transporter signature motif; other site 572263001828 Walker B; other site 572263001829 D-loop; other site 572263001830 H-loop/switch region; other site 572263001831 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 572263001832 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 572263001833 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 572263001834 dimer interface [polypeptide binding]; other site 572263001835 substrate binding site [chemical binding]; other site 572263001836 metal binding sites [ion binding]; metal-binding site 572263001837 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 572263001838 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 572263001839 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 572263001840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572263001841 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 572263001842 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 572263001843 Cation transport protein; Region: TrkH; cl10514 572263001844 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 572263001845 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 572263001846 active site 572263001847 dimer interface [polypeptide binding]; other site 572263001848 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 572263001849 dimer interface [polypeptide binding]; other site 572263001850 active site 572263001851 DNA polymerase III PolC; Validated; Region: polC; PRK00448 572263001852 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 572263001853 active site 572263001854 substrate binding site [chemical binding]; other site 572263001855 catalytic site [active] 572263001856 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 572263001857 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 572263001858 Catalytic site [active] 572263001859 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572263001860 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 572263001861 Walker A/P-loop; other site 572263001862 ATP binding site [chemical binding]; other site 572263001863 Q-loop/lid; other site 572263001864 ABC transporter signature motif; other site 572263001865 Walker B; other site 572263001866 D-loop; other site 572263001867 H-loop/switch region; other site 572263001868 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 572263001869 FtsX-like permease family; Region: FtsX; cl15850 572263001870 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 572263001871 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 572263001872 MatE; Region: MatE; cl10513 572263001873 hypothetical protein; Provisional; Region: PRK09609 572263001874 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 572263001875 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572263001876 active site 572263001877 HIGH motif; other site 572263001878 nucleotide binding site [chemical binding]; other site 572263001879 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 572263001880 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 572263001881 active site 572263001882 KMSKS motif; other site 572263001883 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 572263001884 tRNA binding surface [nucleotide binding]; other site 572263001885 anticodon binding site; other site 572263001886 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 572263001887 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 572263001888 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 572263001889 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 572263001890 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 572263001891 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 572263001892 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 572263001893 60Kd inner membrane protein; Region: 60KD_IMP; cl00489