-- dump date 20111121_013417 -- class Genbank::misc_feature -- table misc_feature_note -- id note 295358000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 295358000002 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...; Region: AAA; cd00009 295358000003 Walker A motif; other site 295358000004 ATP binding site [chemical binding]; other site 295358000005 Walker B motif; other site 295358000006 arginine finger; other site 295358000007 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 295358000008 DnaA box-binding interface [nucleotide binding]; other site 295358000009 DNA polymerase III subunit beta; Provisional; Region: PRK14946 295358000010 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...; Region: beta_clamp; cd00140 295358000011 putative DNA binding surface [nucleotide binding]; other site 295358000012 dimer interface [polypeptide binding]; other site 295358000013 beta-clamp/clamp loader binding surface; other site 295358000014 beta-clamp/translesion DNA polymerase binding surface; other site 295358000015 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 295358000016 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 295358000017 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 295358000018 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 295358000019 DHH family; Region: DHH; pfam01368 295358000020 DHH family; Region: DHH; pfam01368 295358000021 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 295358000022 DHHA1 domain; Region: DHHA1; pfam02272 295358000023 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 295358000024 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 295358000025 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 295358000026 P loop; other site 295358000027 GTP binding site [chemical binding]; other site 295358000028 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 295358000029 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 295358000030 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 295358000031 catalytic residues [active] 295358000032 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 295358000033 HrcA protein C terminal domain; Region: HrcA; pfam01628 295358000034 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 295358000035 dimer interface [polypeptide binding]; other site 295358000036 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 295358000037 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 295358000038 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 295358000039 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 295358000040 active site 295358000041 HIGH motif; other site 295358000042 KMSK motif region; other site 295358000043 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 295358000044 tRNA binding surface [nucleotide binding]; other site 295358000045 anticodon binding site; other site 295358000046 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 295358000047 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...; Region: TBP_aldolase_IIB; cd00947 295358000048 hypothetical protein; Provisional; Region: PRK08185 295358000049 intersubunit interface [polypeptide binding]; other site 295358000050 active site 295358000051 zinc binding site [ion binding]; other site 295358000052 Na+ binding site [ion binding]; other site 295358000053 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 295358000054 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...; Region: PseudoU_synth_RluCD_like; cd02869 295358000055 active site 295358000056 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358000057 Q-loop/lid; other site 295358000058 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 295358000059 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 295358000060 Walker A/P-loop; other site 295358000061 ATP binding site [chemical binding]; other site 295358000062 Q-loop/lid; other site 295358000063 ABC transporter signature motif; other site 295358000064 Walker B; other site 295358000065 D-loop; other site 295358000066 H-loop/switch region; other site 295358000067 FtsX-like permease family; Region: FtsX; pfam02687 295358000068 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 295358000069 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358000070 Walker A/P-loop; other site 295358000071 ATP binding site [chemical binding]; other site 295358000072 Q-loop/lid; other site 295358000073 ABC transporter signature motif; other site 295358000074 Walker B; other site 295358000075 D-loop; other site 295358000076 H-loop/switch region; other site 295358000077 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 295358000078 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358000079 Walker A/P-loop; other site 295358000080 ATP binding site [chemical binding]; other site 295358000081 Q-loop/lid; other site 295358000082 ABC transporter signature motif; other site 295358000083 Walker B; other site 295358000084 D-loop; other site 295358000085 H-loop/switch region; other site 295358000086 FtsX-like permease family; Region: FtsX; pfam02687 295358000087 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 295358000088 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358000089 Walker A/P-loop; other site 295358000090 ATP binding site [chemical binding]; other site 295358000091 Q-loop/lid; other site 295358000092 ABC transporter signature motif; other site 295358000093 Walker B; other site 295358000094 D-loop; other site 295358000095 H-loop/switch region; other site 295358000096 FtsX-like permease family; Region: FtsX; pfam02687 295358000097 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 295358000098 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358000099 Walker A/P-loop; other site 295358000100 ATP binding site [chemical binding]; other site 295358000101 Q-loop/lid; other site 295358000102 ABC transporter signature motif; other site 295358000103 Walker B; other site 295358000104 D-loop; other site 295358000105 H-loop/switch region; other site 295358000106 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 295358000107 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 295358000108 Catalytic site [active] 295358000109 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 295358000110 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 295358000111 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 295358000112 GatB domain; Region: GatB_Yqey; cl11497 295358000113 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 295358000114 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 295358000115 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 295358000116 active site 295358000117 HIGH motif; other site 295358000118 nucleotide binding site [chemical binding]; other site 295358000119 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 295358000120 active site 295358000121 KMSKS motif; other site 295358000122 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 295358000123 tRNA binding surface [nucleotide binding]; other site 295358000124 anticodon binding site; other site 295358000125 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 295358000126 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 295358000127 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...; Region: TOP4c; cd00187 295358000128 CAP-like domain; other site 295358000129 Active site [active] 295358000130 primary dimer interface [polypeptide binding]; other site 295358000131 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 295358000132 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; cl00075 295358000133 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 295358000134 anchoring element; other site 295358000135 dimer interface [polypeptide binding]; other site 295358000136 ATP binding site [chemical binding]; other site 295358000137 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 295358000138 active site 295358000139 putative metal-binding site [ion binding]; other site 295358000140 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 295358000141 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 295358000142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 295358000143 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 295358000144 ribonuclease R; Region: RNase_R; TIGR02063 295358000145 RNB domain; Region: RNB; pfam00773 295358000146 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 295358000147 RNA binding site [nucleotide binding]; other site 295358000148 Preprotein translocase SecG subunit; Region: SecG; cl09123 295358000149 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 295358000150 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 295358000151 putative active site [active] 295358000152 catalytic site [active] 295358000153 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 295358000154 putative active site [active] 295358000155 catalytic site [active] 295358000156 recombinase A; Provisional; Region: recA; PRK09354 295358000157 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 295358000158 hexamer interface [polypeptide binding]; other site 295358000159 Walker A motif; other site 295358000160 ATP binding site [chemical binding]; other site 295358000161 Walker B motif; other site 295358000162 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 295358000163 active site 295358000164 substrate binding site [chemical binding]; other site 295358000165 ATP binding site [chemical binding]; other site 295358000166 GTPase CgtA; Reviewed; Region: obgE; PRK12297 295358000167 GTP1/OBG; Region: GTP1_OBG; pfam01018 295358000168 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 295358000169 G1 box; other site 295358000170 GTP/Mg2+ binding site [chemical binding]; other site 295358000171 Switch I region; other site 295358000172 G2 box; other site 295358000173 G3 box; other site 295358000174 Switch II region; other site 295358000175 G4 box; other site 295358000176 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 295358000177 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 295358000178 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 295358000179 active site 295358000180 DNA binding site [nucleotide binding] 295358000181 ATP synthase A chain; Region: ATP-synt_A; cl00413 295358000182 ATP synthase subunit C; Region: ATP-synt_C; cl00466 295358000183 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 295358000184 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 295358000185 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 295358000186 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 295358000187 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 295358000188 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 295358000189 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 295358000190 beta subunit interaction interface [polypeptide binding]; other site 295358000191 Walker A motif; other site 295358000192 ATP binding site [chemical binding]; other site 295358000193 Walker B motif; other site 295358000194 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 295358000195 ATP synthase; Region: ATP-synt; cl00365 295358000196 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 295358000197 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 295358000198 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 295358000199 alpha subunit interaction interface [polypeptide binding]; other site 295358000200 Walker A motif; other site 295358000201 ATP binding site [chemical binding]; other site 295358000202 Walker B motif; other site 295358000203 inhibitor binding site; inhibition site 295358000204 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 295358000205 Recombination protein U; Region: RecU; cl01314 295358000206 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 295358000207 rRNA interaction site [nucleotide binding]; other site 295358000208 S8 interaction site; other site 295358000209 putative laminin-1 binding site; other site 295358000210 elongation factor Ts; Provisional; Region: tsf; PRK09377 295358000211 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 295358000212 Elongation factor TS; Region: EF_TS; pfam00889 295358000213 Elongation factor TS; Region: EF_TS; pfam00889 295358000214 signal recognition particle protein; Provisional; Region: PRK10867 295358000215 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 295358000216 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 295358000217 P loop; other site 295358000218 GTP binding site [chemical binding]; other site 295358000219 Signal peptide binding domain; Region: SRP_SPB; pfam02978 295358000220 glycyl-tRNA synthetase; Provisional; Region: PRK04173 295358000221 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 295358000222 motif 1; other site 295358000223 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...; Region: GlyRS-like_core; cd00774 295358000224 active site 295358000225 motif 2; other site 295358000226 motif 3; other site 295358000227 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...; Region: HGTP_anticodon; cl00266 295358000228 anticodon binding site; other site 295358000229 DNA primase, catalytic core; Region: dnaG; TIGR01391 295358000230 CHC2 zinc finger; Region: zf-CHC2; cl02597 295358000231 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 295358000232 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 295358000233 active site 295358000234 metal binding site [ion binding]; metal-binding site 295358000235 interdomain interaction site; other site 295358000236 RNA polymerase sigma factor; Provisional; Region: PRK05901 295358000237 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 295358000238 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 295358000239 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 295358000240 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...; Region: Sigma70_r4; cl01055 295358000241 Uncharacterized conserved protein [Function unknown]; Region: COG0327 295358000242 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 295358000243 endonuclease IV; Provisional; Region: PRK01060 295358000244 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 D-arabino-6-...; Region: AP2Ec; cd00019 295358000245 AP (apurinic/apyrimidinic) site pocket; other site 295358000246 DNA interaction; other site 295358000247 Metal-binding active site; metal-binding site 295358000248 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 295358000249 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 295358000250 active site 295358000251 HIGH motif; other site 295358000252 dimer interface [polypeptide binding]; other site 295358000253 KMSKS motif; other site 295358000254 DNA helicase, putative; Region: TIGR00376 295358000255 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; cl14882 295358000256 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 295358000257 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 295358000258 putative active site [active] 295358000259 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 295358000260 active site 295358000261 catalytic triad [active] 295358000262 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 295358000263 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 295358000264 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 295358000265 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 295358000266 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 295358000267 chaperone protein DnaJ; Provisional; Region: PRK14276 295358000268 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 295358000269 cytidylate kinase; Provisional; Region: cmk; PRK00023 295358000270 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 295358000271 CMP-binding site; other site 295358000272 The sites determining sugar specificity; other site 295358000273 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 295358000274 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 295358000275 G1 box; other site 295358000276 GTP/Mg2+ binding site [chemical binding]; other site 295358000277 Switch I region; other site 295358000278 G2 box; other site 295358000279 Switch II region; other site 295358000280 G3 box; other site 295358000281 G4 box; other site 295358000282 G5 box; other site 295358000283 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 295358000284 G1 box; other site 295358000285 GTP/Mg2+ binding site [chemical binding]; other site 295358000286 Switch I region; other site 295358000287 G2 box; other site 295358000288 G3 box; other site 295358000289 Switch II region; other site 295358000290 G4 box; other site 295358000291 G5 box; other site 295358000292 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 higher-...; Region: HU_IHF; cd00591 295358000293 IHF - DNA interface [nucleotide binding]; other site 295358000294 IHF dimer interface [polypeptide binding]; other site 295358000295 GTP-binding protein LepA; Provisional; Region: PRK05433 295358000296 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 295358000297 G1 box; other site 295358000298 putative GEF interaction site [polypeptide binding]; other site 295358000299 GTP/Mg2+ binding site [chemical binding]; other site 295358000300 Switch I region; other site 295358000301 G2 box; other site 295358000302 G3 box; other site 295358000303 Switch II region; other site 295358000304 G4 box; other site 295358000305 G5 box; other site 295358000306 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-...; Region: lepA_II; cd03699 295358000307 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 295358000308 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 295358000309 Transposase [DNA replication, recombination, and repair]; Region: COG5421 295358000310 elongation factor G; Reviewed; Region: PRK12739 295358000311 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 295358000312 G1 box; other site 295358000313 putative GEF interaction site [polypeptide binding]; other site 295358000314 GTP/Mg2+ binding site [chemical binding]; other site 295358000315 Switch I region; other site 295358000316 G2 box; other site 295358000317 G3 box; other site 295358000318 Switch II region; other site 295358000319 G4 box; other site 295358000320 G5 box; other site 295358000321 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...; Region: EFG_mtEFG_II; cd04088 295358000322 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...; Region: EFG_mtEFG1_IV; cd01434 295358000323 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...; Region: EFG_mtEFG_C; cd03713 295358000324 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 295358000325 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 295358000326 S17 interaction site [polypeptide binding]; other site 295358000327 S8 interaction site; other site 295358000328 16S rRNA interaction site [nucleotide binding]; other site 295358000329 streptomycin interaction site [chemical binding]; other site 295358000330 23S rRNA interaction site [nucleotide binding]; other site 295358000331 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 295358000332 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 295358000333 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358000334 Walker A/P-loop; other site 295358000335 ATP binding site [chemical binding]; other site 295358000336 Q-loop/lid; other site 295358000337 ABC transporter signature motif; other site 295358000338 Walker B; other site 295358000339 D-loop; other site 295358000340 H-loop/switch region; other site 295358000341 FtsX-like permease family; Region: FtsX; pfam02687 295358000342 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 295358000343 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 295358000344 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 295358000345 DNA topoisomerase I; Validated; Region: PRK05582 295358000346 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 295358000347 active site 295358000348 metal binding site [ion binding]; metal-binding site 295358000349 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded...; Region: TOP1Ac; cl11986 295358000350 domain I; other site 295358000351 DNA binding groove [nucleotide binding] 295358000352 phosphate binding site [ion binding]; other site 295358000353 domain II; other site 295358000354 domain III; other site 295358000355 nucleotide binding site [chemical binding]; other site 295358000356 catalytic site [active] 295358000357 domain IV; other site 295358000358 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 295358000359 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 295358000360 CTP synthetase; Validated; Region: pyrG; PRK05380 295358000361 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...; Region: CTGs; cd03113 295358000362 Catalytic site [active] 295358000363 Active site [active] 295358000364 UTP binding site [chemical binding]; other site 295358000365 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 295358000366 active site 295358000367 putative oxyanion hole; other site 295358000368 catalytic triad [active] 295358000369 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 295358000370 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...; Region: SIS_RpiR; cd05013 295358000371 putative active site [active] 295358000372 hypothetical protein; Provisional; Region: PRK07143 295358000373 Cytidylyltransferase-like domain; Region: cytidylyltransferase_like; cd02039 295358000374 active site 295358000375 (T/H)XGH motif; other site 295358000376 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; cl11391 295358000377 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 295358000378 active site 295358000379 motif I; other site 295358000380 motif II; other site 295358000381 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; cl11391 295358000382 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02193 295358000383 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...; Region: PseudoU_synth_EcTruB; cd02573 295358000384 RNA binding site [nucleotide binding]; other site 295358000385 active site 295358000386 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 295358000387 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 295358000388 putative tRNA-binding site [nucleotide binding]; other site 295358000389 tRNA synthetase B5 domain; Region: B5; cl08394 295358000390 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 295358000391 motif 1; other site 295358000392 dimer interface [polypeptide binding]; other site 295358000393 active site 295358000394 motif 3; other site 295358000395 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 295358000396 dimer interface [polypeptide binding]; other site 295358000397 motif 1; other site 295358000398 active site 295358000399 motif 2; other site 295358000400 motif 3; other site 295358000401 DNA polymerase III PolC; Validated; Region: polC; PRK00448 295358000402 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 295358000403 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 295358000404 SmpB-tmRNA interface; other site 295358000405 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 295358000406 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 295358000407 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 295358000408 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; cl11391 295358000409 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 295358000410 Predicted nucleotidyltransferase [General function prediction only]; Region: COG1323 295358000411 hypothetical protein; Provisional; Region: PRK13671 295358000412 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 295358000413 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 295358000414 nucleotide binding pocket [chemical binding]; other site 295358000415 K-X-D-G motif; other site 295358000416 catalytic site [active] 295358000417 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 295358000418 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 295358000419 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 295358000420 Cobalt transport protein; Region: CbiQ; cl00463 295358000421 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13651 295358000422 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...; Region: ABC_cobalt_CbiO_domain1; cd03225 295358000423 Walker A/P-loop; other site 295358000424 ATP binding site [chemical binding]; other site 295358000425 Q-loop/lid; other site 295358000426 ABC transporter signature motif; other site 295358000427 Walker B; other site 295358000428 D-loop; other site 295358000429 H-loop/switch region; other site 295358000430 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13632 295358000431 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...; Region: ABC_cobalt_CbiO_domain1; cd03225 295358000432 Walker A/P-loop; other site 295358000433 ATP binding site [chemical binding]; other site 295358000434 Q-loop/lid; other site 295358000435 ABC transporter signature motif; other site 295358000436 Walker B; other site 295358000437 D-loop; other site 295358000438 H-loop/switch region; other site 295358000439 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 295358000440 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 295358000441 DNA polymerase III subunit delta'; Validated; Region: PRK07132 295358000442 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358000443 thymidylate kinase; Validated; Region: tmk; PRK00698 295358000444 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...; Region: TMPK; cd01672 295358000445 TMP-binding site; other site 295358000446 ATP-binding site [chemical binding]; other site 295358000447 recombination protein RecR; Reviewed; Region: recR; PRK00076 295358000448 RecR protein; Region: RecR; pfam02132 295358000449 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 295358000450 putative active site [active] 295358000451 putative metal-binding site [ion binding]; other site 295358000452 tetramer interface [polypeptide binding]; other site 295358000453 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 295358000454 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07133 295358000455 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...; Region: AAA; cd00009 295358000456 Walker A motif; other site 295358000457 ATP binding site [chemical binding]; other site 295358000458 Walker B motif; other site 295358000459 arginine finger; other site 295358000460 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 295358000461 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 295358000462 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 295358000463 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 295358000464 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 295358000465 conserved cys residue [active] 295358000466 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 295358000467 seryl-tRNA synthetase; Provisional; Region: PRK05431 295358000468 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 295358000469 dimer interface [polypeptide binding]; other site 295358000470 active site 295358000471 motif 1; other site 295358000472 motif 2; other site 295358000473 motif 3; other site 295358000474 enolase; Provisional; Region: eno; PRK00077 295358000475 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 295358000476 dimer interface [polypeptide binding]; other site 295358000477 metal binding site [ion binding]; metal-binding site 295358000478 substrate binding pocket [chemical binding]; other site 295358000479 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 295358000480 AAA-like domain; Region: AAA_10; pfam12846 295358000481 Domain of unknown function DUF87; Region: DUF87; pfam01935 295358000482 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 295358000483 Domain of unknown function (DUF386); Region: DUF386; cl01047 295358000484 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 295358000485 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 295358000486 dimer interface [polypeptide binding]; other site 295358000487 anticodon binding site; other site 295358000488 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 295358000489 motif 1; other site 295358000490 dimer interface [polypeptide binding]; other site 295358000491 active site 295358000492 motif 2; other site 295358000493 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 295358000494 active site 295358000495 motif 3; other site 295358000496 histidyl-tRNA synthetase; Region: hisS; TIGR00442 295358000497 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 295358000498 dimer interface [polypeptide binding]; other site 295358000499 motif 1; other site 295358000500 active site 295358000501 motif 2; other site 295358000502 motif 3; other site 295358000503 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...; Region: HGTP_anticodon; cl00266 295358000504 anticodon binding site; other site 295358000505 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 295358000506 Protein export membrane protein; Region: SecD_SecF; cl14618 295358000507 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 295358000508 Protein export membrane protein; Region: SecD_SecF; cl14618 295358000509 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 295358000510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 295358000511 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 295358000512 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 295358000513 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 295358000514 ligand binding site [chemical binding]; other site 295358000515 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 295358000516 TM-ABC transporter signature motif; other site 295358000517 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 295358000518 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...; Region: ABC_Carb_Monos_I; cd03216 295358000519 Walker A/P-loop; other site 295358000520 ATP binding site [chemical binding]; other site 295358000521 Q-loop/lid; other site 295358000522 ABC transporter signature motif; other site 295358000523 Walker B; other site 295358000524 D-loop; other site 295358000525 H-loop/switch region; other site 295358000526 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 295358000527 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 295358000528 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 D-arabino-6-...; Region: AP2Ec; cl12060 295358000529 AP (apurinic/apyrimidinic) site pocket; other site 295358000530 DNA interaction; other site 295358000531 Metal-binding active site; metal-binding site 295358000532 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 295358000533 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 295358000534 PYR/PP interface [polypeptide binding]; other site 295358000535 dimer interface [polypeptide binding]; other site 295358000536 TPP binding site [chemical binding]; other site 295358000537 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 295358000538 TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 295358000539 TPP-binding site; other site 295358000540 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 295358000541 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 295358000542 KduI/IolB family; Region: KduI; cl01508 295358000543 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 295358000544 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 295358000545 substrate binding site [chemical binding]; other site 295358000546 ATP binding site [chemical binding]; other site 295358000547 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 295358000548 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 295358000549 NAD(P) binding site [chemical binding]; other site 295358000550 catalytic residues [active] 295358000551 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...; Region: SHMT; cd00378 295358000552 dimer interface [polypeptide binding]; other site 295358000553 glycine-pyridoxal phosphate binding site [chemical binding]; other site 295358000554 active site 295358000555 folate binding site [chemical binding]; other site 295358000556 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 295358000557 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 295358000558 dimer interface [polypeptide binding]; other site 295358000559 putative radical transfer pathway; other site 295358000560 diiron center [ion binding]; other site 295358000561 tyrosyl radical; other site 295358000562 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 295358000563 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07187 295358000564 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 295358000565 Class I ribonucleotide reductase; Region: RNR_I; cd01679 295358000566 active site 295358000567 dimer interface [polypeptide binding]; other site 295358000568 catalytic residues [active] 295358000569 effector binding site; other site 295358000570 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 295358000571 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 295358000572 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 295358000573 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 295358000574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358000575 Walker A/P-loop; other site 295358000576 ATP binding site [chemical binding]; other site 295358000577 Q-loop/lid; other site 295358000578 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 295358000579 ABC transporter signature motif; other site 295358000580 Walker B; other site 295358000581 D-loop; other site 295358000582 H-loop/switch region; other site 295358000583 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 295358000584 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 295358000585 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 295358000586 Walker A/P-loop; other site 295358000587 ATP binding site [chemical binding]; other site 295358000588 Q-loop/lid; other site 295358000589 ABC transporter signature motif; other site 295358000590 Walker B; other site 295358000591 D-loop; other site 295358000592 H-loop/switch region; other site 295358000593 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 295358000594 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 295358000595 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 295358000596 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...; Region: TM_PBP2; cd06261 295358000597 dimer interface [polypeptide binding]; other site 295358000598 conserved gate region; other site 295358000599 putative PBP binding loops; other site 295358000600 ABC-ATPase subunit interface; other site 295358000601 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 295358000602 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 295358000603 Walker A/P-loop; other site 295358000604 ATP binding site [chemical binding]; other site 295358000605 Q-loop/lid; other site 295358000606 ABC transporter signature motif; other site 295358000607 Walker B; other site 295358000608 D-loop; other site 295358000609 H-loop/switch region; other site 295358000610 ABC transporter; Region: ABC_tran_2; pfam12848 295358000611 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...; Region: ABCF_EF-3; cd03221 295358000612 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 295358000613 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 295358000614 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 295358000615 G1 box; other site 295358000616 GTP/Mg2+ binding site [chemical binding]; other site 295358000617 Switch I region; other site 295358000618 G2 box; other site 295358000619 Switch II region; other site 295358000620 G3 box; other site 295358000621 G4 box; other site 295358000622 G5 box; other site 295358000623 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 295358000624 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 295358000625 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 295358000626 active site 295358000627 motif I; other site 295358000628 motif II; other site 295358000629 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; cl11391 295358000630 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 295358000631 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-...; Region: LysRS_N; cd04322 295358000632 dimer interface [polypeptide binding]; other site 295358000633 putative anticodon binding site; other site 295358000634 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 295358000635 motif 1; other site 295358000636 active site 295358000637 motif 2; other site 295358000638 motif 3; other site 295358000639 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 295358000640 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...; Region: AAA; cd00009 295358000641 Walker B motif; other site 295358000642 arginine finger; other site 295358000643 Peptidase family M41; Region: Peptidase_M41; pfam01434 295358000644 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 295358000645 Ligand Binding Site [chemical binding]; other site 295358000646 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 295358000647 putative active site [active] 295358000648 catalytic residue [active] 295358000649 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 295358000650 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 295358000651 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...; Region: AlaRS_core; cd00673 295358000652 motif 1; other site 295358000653 active site 295358000654 motif 2; other site 295358000655 motif 3; other site 295358000656 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 295358000657 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 295358000658 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 295358000659 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 295358000660 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 295358000661 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 295358000662 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 295358000663 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 295358000664 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 295358000665 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 295358000666 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 295358000667 putative translocon binding site; other site 295358000668 protein-rRNA interface [nucleotide binding]; other site 295358000669 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 295358000670 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...; Region: 30S_S3_KH; cd02412 295358000671 G-X-X-G motif; other site 295358000672 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 295358000673 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 295358000674 23S rRNA interface [nucleotide binding]; other site 295358000675 5S rRNA interface [nucleotide binding]; other site 295358000676 putative antibiotic binding site [chemical binding]; other site 295358000677 L25 interface [polypeptide binding]; other site 295358000678 L27 interface [polypeptide binding]; other site 295358000679 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...; Region: Ribosomal_L29_HIP; cd00427 295358000680 23S rRNA interface [nucleotide binding]; other site 295358000681 putative translocon interaction site; other site 295358000682 signal recognition particle (SRP54) interaction site; other site 295358000683 L23 interface [polypeptide binding]; other site 295358000684 trigger factor interaction site; other site 295358000685 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 295358000686 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 295358000687 KOW motif; Region: KOW; cl00354 295358000688 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 295358000689 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 295358000690 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 295358000691 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 295358000692 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 295358000693 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 295358000694 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 295358000695 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 295358000696 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 295358000697 5S rRNA interface [nucleotide binding]; other site 295358000698 23S rRNA interface [nucleotide binding]; other site 295358000699 L5 interface [polypeptide binding]; other site 295358000700 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 295358000701 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 295358000702 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 295358000703 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 295358000704 SecY translocase; Region: SecY; pfam00344 295358000705 adenylate kinases; Region: adk; TIGR01351 295358000706 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 295358000707 AMP-binding site [chemical binding]; other site 295358000708 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 295358000709 methionine aminopeptidase; Reviewed; Region: PRK07281 295358000710 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 295358000711 active site 295358000712 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 295358000713 rRNA binding site [nucleotide binding]; other site 295358000714 predicted 30S ribosome binding site; other site 295358000715 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 295358000716 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 295358000717 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 295358000718 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 295358000719 alphaNTD homodimer interface [polypeptide binding]; other site 295358000720 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 295358000721 alphaNTD - beta interaction site [polypeptide binding]; other site 295358000722 alphaNTD - beta' interaction site [polypeptide binding]; other site 295358000723 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 295358000724 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 295358000725 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 295358000726 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 295358000727 RNA binding surface [nucleotide binding]; other site 295358000728 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 295358000729 active site 295358000730 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 295358000731 trimerization site [polypeptide binding]; other site 295358000732 active site 295358000733 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 295358000734 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 295358000735 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 295358000736 catalytic residue [active] 295358000737 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 295358000738 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; cl12011 295358000739 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 rRNA-...; Region: NusB_Sun; cl00223 295358000740 Sulfatase; Region: Sulfatase; cl10460 295358000741 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 295358000742 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 295358000743 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various...; Region: Peptidase_C39E; cd02424 295358000744 putative active site [active] 295358000745 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358000746 Walker A/P-loop; other site 295358000747 ATP binding site [chemical binding]; other site 295358000748 Q-loop/lid; other site 295358000749 ABC transporter signature motif; other site 295358000750 Walker B; other site 295358000751 D-loop; other site 295358000752 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 295358000753 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 295358000754 active site 295358000755 catalytic motif [active] 295358000756 Zn binding site [ion binding]; other site 295358000757 GTPase Era; Reviewed; Region: era; PRK00089 295358000758 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 295358000759 G1 box; other site 295358000760 GTP/Mg2+ binding site [chemical binding]; other site 295358000761 Switch I region; other site 295358000762 G2 box; other site 295358000763 Switch II region; other site 295358000764 G3 box; other site 295358000765 G4 box; other site 295358000766 Recombination protein O N terminal; Region: RecO_N; pfam11967 295358000767 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 295358000768 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 295358000769 S-adenosylmethionine binding site [chemical binding]; other site 295358000770 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...; Region: GMPK; cd00071 295358000771 catalytic site [active] 295358000772 G-X2-G-X-G-K; other site 295358000773 GTPase RsgA; Reviewed; Region: PRK00098 295358000774 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 295358000775 GTPase/OB domain interface [polypeptide binding]; other site 295358000776 GTPase/Zn-binding domain interface [polypeptide binding]; other site 295358000777 GTP/Mg2+ binding site [chemical binding]; other site 295358000778 G4 box; other site 295358000779 G5 box; other site 295358000780 G1 box; other site 295358000781 Switch I region; other site 295358000782 G2 box; other site 295358000783 G3 box; other site 295358000784 Switch II region; other site 295358000785 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 295358000786 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...; Region: RPE; cd00429 295358000787 substrate binding site [chemical binding]; other site 295358000788 hexamer interface [polypeptide binding]; other site 295358000789 metal binding site [ion binding]; metal-binding site 295358000790 trigger factor; Region: tig; TIGR00115 295358000791 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 295358000792 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 295358000793 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 295358000794 dimerization interface [polypeptide binding]; other site 295358000795 domain crossover interface; other site 295358000796 redox-dependent activation switch; other site 295358000797 Competence-damaged protein; Region: CinA; cl00666 295358000798 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 295358000799 Chromate transporter; Region: Chromate_transp; pfam02417 295358000800 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 295358000801 Chromate transporter; Region: Chromate_transp; pfam02417 295358000802 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 295358000803 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 295358000804 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 295358000805 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 295358000806 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 295358000807 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 295358000808 active site 295358000809 HIGH motif; other site 295358000810 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 295358000811 active site 295358000812 KMSKS motif; other site 295358000813 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 295358000814 S-adenosylmethionine binding site [chemical binding]; other site 295358000815 peptide chain release factor 1; Validated; Region: prfA; PRK00591 295358000816 RF-1 domain; Region: RF-1; cl02875 295358000817 RF-1 domain; Region: RF-1; cl02875 295358000818 Domain of unknown function DUF31; Region: DUF31; pfam01732 295358000819 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 295358000820 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 295358000821 NAD binding site [chemical binding]; other site 295358000822 dimer interface [polypeptide binding]; other site 295358000823 tetramer (dimer of dimers) interface [polypeptide binding]; other site 295358000824 substrate binding site [chemical binding]; other site 295358000825 benzoate transport; Region: 2A0115; TIGR00895 295358000826 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 295358000827 putative substrate translocation pore; other site 295358000828 Uncharacterized conserved protein [Function unknown]; Region: COG1284 295358000829 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 295358000830 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 295358000831 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 295358000832 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 295358000833 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 295358000834 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 295358000835 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 295358000836 oligomer interface [polypeptide binding]; other site 295358000837 active site 295358000838 metal binding site [ion binding]; metal-binding site 295358000839 pyruvate kinase; Provisional; Region: PRK05826 295358000840 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 295358000841 domain interfaces; other site 295358000842 active site 295358000843 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 295358000844 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 295358000845 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 295358000846 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 295358000847 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 295358000848 23S rRNA binding site [nucleotide binding]; other site 295358000849 L21 binding site [polypeptide binding]; other site 295358000850 L13 binding site [polypeptide binding]; other site 295358000851 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 295358000852 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 295358000853 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 295358000854 alpha subunit interface [polypeptide binding]; other site 295358000855 TPP binding site [chemical binding]; other site 295358000856 heterodimer interface [polypeptide binding]; other site 295358000857 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 295358000858 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 295358000859 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 295358000860 tetramer interface [polypeptide binding]; other site 295358000861 TPP-binding site [chemical binding]; other site 295358000862 heterodimer interface [polypeptide binding]; other site 295358000863 phosphorylation loop region [posttranslational modification] 295358000864 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 295358000865 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 295358000866 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 295358000867 active site 295358000868 ADP/pyrophosphate binding site [chemical binding]; other site 295358000869 dimerization interface [polypeptide binding]; other site 295358000870 allosteric effector site; other site 295358000871 fructose-1,6-bisphosphate binding site; other site 295358000872 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 295358000873 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 295358000874 ATP binding site [chemical binding]; other site 295358000875 Mg2+ binding site [ion binding]; other site 295358000876 G-X-G motif; other site 295358000877 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 295358000878 anchoring element; other site 295358000879 dimer interface [polypeptide binding]; other site 295358000880 ATP binding site [chemical binding]; other site 295358000881 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 295358000882 active site 295358000883 putative metal-binding site [ion binding]; other site 295358000884 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 295358000885 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...; Region: Ribosomal_S15p_S13e; cd00353 295358000886 16S/18S rRNA binding site [nucleotide binding]; other site 295358000887 S13e-L30e interaction site [polypeptide binding]; other site 295358000888 25S rRNA binding site [nucleotide binding]; other site 295358000889 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 295358000890 substrate binding site [chemical binding]; other site 295358000891 dimer interface [polypeptide binding]; other site 295358000892 catalytic triad [active] 295358000893 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...; Region: AAA; cd00009 295358000894 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 295358000895 Walker A motif; other site 295358000896 ATP binding site [chemical binding]; other site 295358000897 Walker B motif; other site 295358000898 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 295358000899 arginine finger; other site 295358000900 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...; Region: AAA; cd00009 295358000901 Walker A motif; other site 295358000902 ATP binding site [chemical binding]; other site 295358000903 Walker B motif; other site 295358000904 arginine finger; other site 295358000905 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 295358000906 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 295358000907 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 295358000908 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 295358000909 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 295358000910 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 295358000911 dimer interface [polypeptide binding]; other site 295358000912 catalytic triad [active] 295358000913 peroxidatic and resolving cysteines [active] 295358000914 dUTPase; Region: dUTPase_2; pfam08761 295358000915 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 295358000916 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 295358000917 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 295358000918 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 295358000919 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 295358000920 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 295358000921 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 295358000922 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 295358000923 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 295358000924 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 295358000925 Peptidase S8 family domain, uncharacterized subfamily 2; Region: Peptidases_S8_2; cd07488 295358000926 putative catalytic residues [active] 295358000927 putative active site [active] 295358000928 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 295358000929 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases...; Region: YlqF; cd01856 295358000930 GTP/Mg2+ binding site [chemical binding]; other site 295358000931 G4 box; other site 295358000932 G5 box; other site 295358000933 G1 box; other site 295358000934 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 295358000935 Switch I region; other site 295358000936 G2 box; other site 295358000937 G3 box; other site 295358000938 Switch II region; other site 295358000939 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12903 295358000940 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 295358000941 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; cl14882 295358000942 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 295358000943 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 295358000944 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 295358000945 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 295358000946 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 295358000947 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 295358000948 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 295358000949 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 295358000950 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 295358000951 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 295358000952 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 295358000953 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 295358000954 GTP-binding protein YchF; Reviewed; Region: PRK09601 295358000955 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 295358000956 G1 box; other site 295358000957 GTP/Mg2+ binding site [chemical binding]; other site 295358000958 Switch I region; other site 295358000959 G2 box; other site 295358000960 Switch II region; other site 295358000961 G3 box; other site 295358000962 G4 box; other site 295358000963 G5 box; other site 295358000964 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 295358000965 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 295358000966 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 295358000967 dimer interface [polypeptide binding]; other site 295358000968 ssDNA binding site [nucleotide binding]; other site 295358000969 tetramer (dimer of dimers) interface [polypeptide binding]; other site 295358000970 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 295358000971 Peptidase S7, Flavivirus NS3 serine protease; Region: Peptidase_S7; pfam00949 295358000972 Major Facilitator Superfamily; Region: MFS_1; pfam07690 295358000973 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 295358000974 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 295358000975 active site 295358000976 catalytic site [active] 295358000977 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 295358000978 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358000979 Walker A/P-loop; other site 295358000980 ATP binding site [chemical binding]; other site 295358000981 Q-loop/lid; other site 295358000982 ABC transporter signature motif; other site 295358000983 Walker B; other site 295358000984 D-loop; other site 295358000985 H-loop/switch region; other site 295358000986 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 295358000987 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 295358000988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358000989 Walker A/P-loop; other site 295358000990 ATP binding site [chemical binding]; other site 295358000991 Q-loop/lid; other site 295358000992 ABC transporter signature motif; other site 295358000993 Walker B; other site 295358000994 D-loop; other site 295358000995 H-loop/switch region; other site 295358000996 FtsX-like permease family; Region: FtsX; pfam02687 295358000997 DNA polymerase III PolC; Validated; Region: polC; PRK00448 295358000998 GA module; Region: GA; cl08325 295358000999 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 295358001000 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 295358001001 putative active site [active] 295358001002 putative FMN binding site [chemical binding]; other site 295358001003 putative substrate binding site [chemical binding]; other site 295358001004 putative catalytic residue [active] 295358001005 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 295358001006 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 295358001007 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 295358001008 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 295358001009 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 L-...; Region: GCS_H; cd06848 295358001010 lipoyl attachment site [posttranslational modification]; other site 295358001011 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 295358001012 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001013 Walker A/P-loop; other site 295358001014 ATP binding site [chemical binding]; other site 295358001015 Q-loop/lid; other site 295358001016 ABC transporter signature motif; other site 295358001017 Walker B; other site 295358001018 D-loop; other site 295358001019 H-loop/switch region; other site 295358001020 FtsX-like permease family; Region: FtsX; pfam02687 295358001021 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 295358001022 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 295358001023 Walker A/P-loop; other site 295358001024 ATP binding site [chemical binding]; other site 295358001025 Q-loop/lid; other site 295358001026 ABC transporter signature motif; other site 295358001027 Walker B; other site 295358001028 D-loop; other site 295358001029 H-loop/switch region; other site 295358001030 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; cl12011 295358001031 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; cl12011 295358001032 DEAD-like helicases superfamily; Region: DEXDc; smart00487 295358001033 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; cl12011 295358001034 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; cl12011 295358001035 LemA family; Region: LemA; cl00742 295358001036 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 295358001037 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001038 Walker A/P-loop; other site 295358001039 ATP binding site [chemical binding]; other site 295358001040 Q-loop/lid; other site 295358001041 ABC transporter signature motif; other site 295358001042 Walker B; other site 295358001043 D-loop; other site 295358001044 H-loop/switch region; other site 295358001045 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 295358001046 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 295358001047 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 295358001048 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; cl11391 295358001049 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001050 Active site [active] 295358001051 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 295358001052 nucleotide binding site/active site [active] 295358001053 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 295358001054 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 295358001055 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-...; Region: MIP; cl00200 295358001056 amphipathic channel; other site 295358001057 Asn-Pro-Ala signature motifs; other site 295358001058 glycerol kinase; Provisional; Region: glpK; PRK00047 295358001059 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 295358001060 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 295358001061 High affinity transport system protein p37; Region: Mycoplasma_p37; pfam06646 295358001062 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 295358001063 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001064 Walker A/P-loop; other site 295358001065 ATP binding site [chemical binding]; other site 295358001066 Q-loop/lid; other site 295358001067 ABC transporter signature motif; other site 295358001068 Walker B; other site 295358001069 D-loop; other site 295358001070 H-loop/switch region; other site 295358001071 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 295358001072 Competence protein; Region: Competence; cl00471 295358001073 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 295358001074 Mycoplasma MG185/MG260 protein; Region: Lipoprotein_X; pfam03305 295358001075 Putative mycoplasma lipoprotein, C-terminal region; Region: Lipoprotein_10; pfam03202 295358001076 Mycoplasma MG185/MG260 protein; Region: Lipoprotein_X; pfam03305 295358001077 Putative mycoplasma lipoprotein, C-terminal region; Region: Lipoprotein_10; pfam03202 295358001078 Staphylococcal nuclease homologues; Region: SNc; smart00318 295358001079 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 295358001080 Catalytic site; other site 295358001081 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001082 Walker A/P-loop; other site 295358001083 ATP binding site [chemical binding]; other site 295358001084 Q-loop/lid; other site 295358001085 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001086 ABC transporter signature motif; other site 295358001087 Walker B; other site 295358001088 D-loop; other site 295358001089 H-loop/switch region; other site 295358001090 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...; Region: TM_PBP2; cl00427 295358001091 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 295358001092 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...; Region: TM_PBP2; cd06261 295358001093 dimer interface [polypeptide binding]; other site 295358001094 conserved gate region; other site 295358001095 putative PBP binding loops; other site 295358001096 ABC-ATPase subunit interface; other site 295358001097 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 295358001098 active site 295358001099 phosphorylation site [posttranslational modification] 295358001100 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 295358001101 P-loop; other site 295358001102 active site 295358001103 phosphorylation site [posttranslational modification] 295358001104 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 295358001105 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: Php; COG1735 295358001106 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...; Region: PTE; cd00530 295358001107 active site 295358001108 substrate binding pocket [chemical binding]; other site 295358001109 homodimer interaction site [polypeptide binding]; other site 295358001110 Putative mycoplasma lipoprotein, C-terminal region; Region: Lipoprotein_10; pfam03202 295358001111 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14267 295358001112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001113 Walker A/P-loop; other site 295358001114 ATP binding site [chemical binding]; other site 295358001115 Q-loop/lid; other site 295358001116 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001117 ABC transporter signature motif; other site 295358001118 Walker B; other site 295358001119 D-loop; other site 295358001120 H-loop/switch region; other site 295358001121 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...; Region: TM_PBP2; cl00427 295358001122 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 295358001123 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 295358001124 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 295358001125 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001126 Walker A/P-loop; other site 295358001127 ATP binding site [chemical binding]; other site 295358001128 Q-loop/lid; other site 295358001129 ABC transporter signature motif; other site 295358001130 Walker B; other site 295358001131 D-loop; other site 295358001132 H-loop/switch region; other site 295358001133 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 295358001134 catalytic residues [active] 295358001135 prolyl-tRNA synthetase; Provisional; Region: PRK08661 295358001136 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...; Region: ProRS_core_arch_euk; cd00778 295358001137 dimer interface [polypeptide binding]; other site 295358001138 motif 1; other site 295358001139 active site 295358001140 motif 2; other site 295358001141 motif 3; other site 295358001142 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...; Region: HGTP_anticodon; cl00266 295358001143 anticodon binding site; other site 295358001144 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; cl12011 295358001145 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; cl12011 295358001146 cell division protein MraZ; Reviewed; Region: PRK00326 295358001147 MraZ protein; Region: MraZ; pfam02381 295358001148 MraZ protein; Region: MraZ; pfam02381 295358001149 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; cl12011 295358001150 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 295358001151 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 295358001152 nucleotide binding site [chemical binding]; other site 295358001153 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 295358001154 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl12019 295358001155 active site 295358001156 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 295358001157 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 295358001158 S-adenosylmethionine binding site [chemical binding]; other site 295358001159 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 295358001160 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 295358001161 active site 295358001162 HIGH motif; other site 295358001163 KMSKS motif; other site 295358001164 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 295358001165 tRNA binding surface [nucleotide binding]; other site 295358001166 anticodon binding site; other site 295358001167 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 post-...; Region: RIBOc; cd00593 295358001168 active site 295358001169 metal binding site [ion binding]; metal-binding site 295358001170 dimerization interface [polypeptide binding]; other site 295358001171 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...; Region: DSRM; cl00054 295358001172 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 295358001173 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 (...; Region: EcAsnRS_like_N; cd04318 295358001174 putative dimer interface [polypeptide binding]; other site 295358001175 putative anticodon binding site; other site 295358001176 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 295358001177 motif 1; other site 295358001178 dimer interface [polypeptide binding]; other site 295358001179 active site 295358001180 motif 2; other site 295358001181 motif 3; other site 295358001182 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 295358001183 UvrD/REP helicase; Region: UvrD-helicase; cl14126 295358001184 UvrD/REP helicase; Region: UvrD-helicase; cl14126 295358001185 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 295358001186 RuvA N terminal domain; Region: RuvA_N; pfam01330 295358001187 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 295358001188 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 295358001189 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...; Region: AAA; cd00009 295358001190 Walker A motif; other site 295358001191 ATP binding site [chemical binding]; other site 295358001192 Walker B motif; other site 295358001193 arginine finger; other site 295358001194 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 295358001195 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 295358001196 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 295358001197 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; cl12011 295358001198 elongation factor P; Validated; Region: PRK00529 295358001199 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 295358001200 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 295358001201 RNA binding site [nucleotide binding]; other site 295358001202 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 295358001203 RNA binding site [nucleotide binding]; other site 295358001204 transketolase; Reviewed; Region: PRK05899 295358001205 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 295358001206 TPP-binding site [chemical binding]; other site 295358001207 dimer interface [polypeptide binding]; other site 295358001208 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 295358001209 PYR/PP interface [polypeptide binding]; other site 295358001210 dimer interface [polypeptide binding]; other site 295358001211 TPP binding site [chemical binding]; other site 295358001212 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 295358001213 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 295358001214 Ligand Binding Site [chemical binding]; other site 295358001215 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 295358001216 substrate binding site [chemical binding]; other site 295358001217 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 295358001218 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 295358001219 active site 295358001220 motif I; other site 295358001221 motif II; other site 295358001222 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; cl11391 295358001223 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 295358001224 intersubunit interface [polypeptide binding]; other site 295358001225 active site 295358001226 Zn2+ binding site [ion binding]; other site 295358001227 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 295358001228 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 D-arabino-6-...; Region: AP2Ec; cl12060 295358001229 AP (apurinic/apyrimidinic) site pocket; other site 295358001230 DNA interaction; other site 295358001231 Metal-binding active site; metal-binding site 295358001232 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 295358001233 active site 295358001234 dimer interface [polypeptide binding]; other site 295358001235 magnesium binding site [ion binding]; other site 295358001236 DNA polymerase III PolC; Validated; Region: polC; PRK00448 295358001237 DUF1410 domain; Region: DUF1410; pfam07198 295358001238 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001239 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 295358001240 G1 box; other site 295358001241 Walker A/P-loop; other site 295358001242 GTP/Mg2+ binding site [chemical binding]; other site 295358001243 ATP binding site [chemical binding]; other site 295358001244 Switch I region; other site 295358001245 G2 box; other site 295358001246 G3 box; other site 295358001247 Switch II region; other site 295358001248 G4 box; other site 295358001249 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 295358001250 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 295358001251 putative active site [active] 295358001252 metal binding site [ion binding]; metal-binding site 295358001253 homodimer binding site [polypeptide binding]; other site 295358001254 S-adenosylmethionine synthetase; Validated; Region: PRK05250 295358001255 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 295358001256 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 295358001257 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 295358001258 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 295358001259 Q-loop/lid; other site 295358001260 ABC transporter signature motif; other site 295358001261 Walker B; other site 295358001262 D-loop; other site 295358001263 H-loop/switch region; other site 295358001264 FtsX-like permease family; Region: FtsX; pfam02687 295358001265 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 295358001266 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 295358001267 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 295358001268 Ferritin-like domain; Region: Ferritin; pfam00210 295358001269 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 295358001270 dimerization interface [polypeptide binding]; other site 295358001271 DPS ferroxidase diiron center [ion binding]; other site 295358001272 ion pore; other site 295358001273 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 295358001274 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...; Region: PseudoU_synth_RluCD_like; cd02869 295358001275 active site 295358001276 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...; Region: Ribosomal_L1; cd00403 295358001277 mRNA/rRNA interface [nucleotide binding]; other site 295358001278 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 295358001279 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 295358001280 23S rRNA interface [nucleotide binding]; other site 295358001281 L7/L12 interface [polypeptide binding]; other site 295358001282 putative thiostrepton binding site; other site 295358001283 L25 interface [polypeptide binding]; other site 295358001284 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...; Region: Peptidase_M17; cd00433 295358001285 interface (dimer of trimers) [polypeptide binding]; other site 295358001286 Substrate-binding/catalytic site; other site 295358001287 Zn-binding sites [ion binding]; other site 295358001288 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; cl12011 295358001289 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 295358001290 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 295358001291 Walker A/P-loop; other site 295358001292 ATP binding site [chemical binding]; other site 295358001293 Q-loop/lid; other site 295358001294 ABC transporter signature motif; other site 295358001295 Walker B; other site 295358001296 D-loop; other site 295358001297 H-loop/switch region; other site 295358001298 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 295358001299 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 295358001300 NAD(P) binding site [chemical binding]; other site 295358001301 LDH/MDH dimer interface [polypeptide binding]; other site 295358001302 substrate binding site [chemical binding]; other site 295358001303 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 295358001304 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 295358001305 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 295358001306 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 295358001307 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...; Region: NAD_synthase; cd00553 295358001308 NAD synthase; Region: NAD_synthase; pfam02540 295358001309 homodimer interface [polypeptide binding]; other site 295358001310 NAD binding pocket [chemical binding]; other site 295358001311 ATP binding pocket [chemical binding]; other site 295358001312 Mg binding site [ion binding]; other site 295358001313 active-site loop [active] 295358001314 Domain of unknown function DUF28; Region: DUF28; cl00361 295358001315 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 295358001316 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 295358001317 putative nicotinate-nucleotide adenylyltransferase; Validated; Region: nadD; PRK07152 295358001318 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 295358001319 active site 295358001320 (T/H)XGH motif; other site 295358001321 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 295358001322 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 295358001323 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 295358001324 active site 295358001325 motif I; other site 295358001326 motif II; other site 295358001327 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; cl11391 295358001328 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 295358001329 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 295358001330 alpha subunit interaction interface [polypeptide binding]; other site 295358001331 Walker A motif; other site 295358001332 ATP binding site [chemical binding]; other site 295358001333 Walker B motif; other site 295358001334 inhibitor binding site; inhibition site 295358001335 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 295358001336 F0F1 ATP synthase subunit alpha; Validated; Region: PRK07165 295358001337 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001338 Walker A motif; other site 295358001339 ATP binding site [chemical binding]; other site 295358001340 Walker B motif; other site 295358001341 Protein of unknown function (DUF2714); Region: DUF2714; pfam10896 295358001342 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 295358001343 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 295358001344 active site 295358001345 motif I; other site 295358001346 motif II; other site 295358001347 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; cl11391 295358001348 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 295358001349 MgtE intracellular N domain; Region: MgtE_N; cl15244 295358001350 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 295358001351 Divalent cation transporter; Region: MgtE; cl00786 295358001352 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 295358001353 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 295358001354 substrate binding site [chemical binding]; other site 295358001355 hinge regions; other site 295358001356 ADP binding site [chemical binding]; other site 295358001357 catalytic site [active] 295358001358 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 295358001359 active site 295358001360 phosphorylation site [posttranslational modification] 295358001361 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...; Region: PTS_IIB_fructose; cd05569 295358001362 P-loop; other site 295358001363 active site 295358001364 phosphorylation site [posttranslational modification] 295358001365 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 295358001366 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 295358001367 mannose-6-phosphate isomerase; Provisional; Region: PRK15131; cl14659 295358001368 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 295358001369 M28, and M42; Region: Zinc_peptidase_like; cl14876 295358001370 metal binding site [ion binding]; metal-binding site 295358001371 asparagine synthetase A; Reviewed; Region: PRK06462 295358001372 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 295358001373 motif 1; other site 295358001374 dimer interface [polypeptide binding]; other site 295358001375 active site 295358001376 motif 2; other site 295358001377 motif 3; other site 295358001378 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001379 Walker A/P-loop; other site 295358001380 ATP binding site [chemical binding]; other site 295358001381 Q-loop/lid; other site 295358001382 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 295358001383 ABC transporter signature motif; other site 295358001384 Walker B; other site 295358001385 D-loop; other site 295358001386 H-loop/switch region; other site 295358001387 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 295358001388 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 295358001389 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 295358001390 Walker A/P-loop; other site 295358001391 ATP binding site [chemical binding]; other site 295358001392 Q-loop/lid; other site 295358001393 ABC transporter signature motif; other site 295358001394 Walker B; other site 295358001395 D-loop; other site 295358001396 H-loop/switch region; other site 295358001397 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 295358001398 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 295358001399 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...; Region: TM_PBP2; cd06261 295358001400 dimer interface [polypeptide binding]; other site 295358001401 ABC-ATPase subunit interface; other site 295358001402 putative PBP binding loops; other site 295358001403 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 295358001404 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...; Region: TM_PBP2; cd06261 295358001405 dimer interface [polypeptide binding]; other site 295358001406 conserved gate region; other site 295358001407 putative PBP binding loops; other site 295358001408 ABC-ATPase subunit interface; other site 295358001409 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 295358001410 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 295358001411 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 295358001412 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 295358001413 E3 interaction surface; other site 295358001414 lipoyl attachment site [posttranslational modification]; other site 295358001415 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 295358001416 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 295358001417 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 295358001418 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 295358001419 Acetokinase family; Region: Acetate_kinase; cl01029 295358001420 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 295358001421 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 295358001422 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 295358001423 putative ligand binding site [chemical binding]; other site 295358001424 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 295358001425 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...; Region: ABC_Carb_Monos_I; cd03216 295358001426 Walker A/P-loop; other site 295358001427 ATP binding site [chemical binding]; other site 295358001428 Q-loop/lid; other site 295358001429 ABC transporter signature motif; other site 295358001430 Walker B; other site 295358001431 D-loop; other site 295358001432 H-loop/switch region; other site 295358001433 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 295358001434 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 295358001435 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 295358001436 TM-ABC transporter signature motif; other site 295358001437 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 295358001438 oligoendopeptidase F; Region: pepF; TIGR00181 295358001439 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 295358001440 active site 295358001441 Zn binding site [ion binding]; other site 295358001442 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 295358001443 dimer interface [polypeptide binding]; other site 295358001444 ssDNA binding site [nucleotide binding]; other site 295358001445 tetramer (dimer of dimers) interface [polypeptide binding]; other site 295358001446 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001447 Walker A motif; other site 295358001448 ATP binding site [chemical binding]; other site 295358001449 Walker B motif; other site 295358001450 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 295358001451 AAA-like domain; Region: AAA_10; pfam12846 295358001452 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl14888 295358001453 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 295358001454 active site 295358001455 oxyanion hole [active] 295358001456 catalytic triad [active] 295358001457 elongation factor Tu; Reviewed; Region: PRK12736 295358001458 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 295358001459 G1 box; other site 295358001460 GEF interaction site [polypeptide binding]; other site 295358001461 GTP/Mg2+ binding site [chemical binding]; other site 295358001462 Switch I region; other site 295358001463 G2 box; other site 295358001464 G3 box; other site 295358001465 Switch II region; other site 295358001466 G4 box; other site 295358001467 G5 box; other site 295358001468 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 295358001469 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 295358001470 Antibiotic Binding Site [chemical binding]; other site 295358001471 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 295358001472 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...; Region: AAA; cd00009 295358001473 Walker A motif; other site 295358001474 ATP binding site [chemical binding]; other site 295358001475 Walker B motif; other site 295358001476 arginine finger; other site 295358001477 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 295358001478 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 295358001479 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 295358001480 intersubunit interface [polypeptide binding]; other site 295358001481 active site 295358001482 catalytic residue [active] 295358001483 DNA gyrase subunit A; Validated; Region: PRK05560 295358001484 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...; Region: TOP4c; cd00187 295358001485 CAP-like domain; other site 295358001486 Active site [active] 295358001487 primary dimer interface [polypeptide binding]; other site 295358001488 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 295358001489 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 295358001490 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 295358001491 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 295358001492 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 295358001493 SelR domain; Region: SelR; cl00369 295358001494 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 295358001495 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 295358001496 active site 295358001497 dimer interface [polypeptide binding]; other site 295358001498 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 295358001499 dimer interface [polypeptide binding]; other site 295358001500 active site 295358001501 DNA polymerase III PolC; Validated; Region: polC; PRK00448 295358001502 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 295358001503 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 295358001504 active site 295358001505 substrate binding site [chemical binding]; other site 295358001506 catalytic site [active] 295358001507 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 295358001508 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 295358001509 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 295358001510 hinge region; other site 295358001511 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 295358001512 putative nucleotide binding site [chemical binding]; other site 295358001513 uridine monophosphate binding site [chemical binding]; other site 295358001514 homohexameric interface [polypeptide binding]; other site 295358001515 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 295358001516 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 295358001517 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...; Region: TM_PBP2; cl00427 295358001518 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...; Region: TM_PBP2; cd06261 295358001519 dimer interface [polypeptide binding]; other site 295358001520 conserved gate region; other site 295358001521 putative PBP binding loops; other site 295358001522 ABC-ATPase subunit interface; other site 295358001523 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001524 Walker A/P-loop; other site 295358001525 ATP binding site [chemical binding]; other site 295358001526 Q-loop/lid; other site 295358001527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001528 ABC transporter signature motif; other site 295358001529 Walker B; other site 295358001530 D-loop; other site 295358001531 H-loop/switch region; other site 295358001532 TOBE domain; Region: TOBE_2; cl01440 295358001533 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 295358001534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 295358001535 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; cl09110 295358001536 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 295358001537 Cation transport protein; Region: TrkH; cl10514 295358001538 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 295358001539 active site 295358001540 phosphorylation site [posttranslational modification] 295358001541 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 295358001542 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 295358001543 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 295358001544 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 295358001545 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 295358001546 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...; Region: PTS_IIB_mannitol; cd05567 295358001547 active site 295358001548 P-loop; other site 295358001549 phosphorylation site [posttranslational modification] 295358001550 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 295358001551 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...; Region: SIS_RpiR; cd05013 295358001552 putative active site [active] 295358001553 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 295358001554 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 295358001555 P-loop; other site 295358001556 active site 295358001557 phosphorylation site [posttranslational modification] 295358001558 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 295358001559 active site 295358001560 phosphorylation site [posttranslational modification] 295358001561 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 295358001562 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 295358001563 phosphate binding site [ion binding]; other site 295358001564 Transposase [DNA replication, recombination, and repair]; Region: COG5421 295358001565 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...; Region: Tryp_SPc; cl00149 295358001566 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 295358001567 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 295358001568 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 295358001569 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 295358001570 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 295358001571 active site 295358001572 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...; Region: TBP_aldolase_IIB; cd00947 295358001573 intersubunit interface [polypeptide binding]; other site 295358001574 active site 295358001575 zinc binding site [ion binding]; other site 295358001576 Na+ binding site [ion binding]; other site 295358001577 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 295358001578 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 295358001579 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...; Region: PTS_IIB_glc; cd00212 295358001580 active site turn [active] 295358001581 phosphorylation site [posttranslational modification] 295358001582 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination...; Region: GlcN6P_deaminase; cd01399 295358001583 active site 295358001584 trimer interface [polypeptide binding]; other site 295358001585 allosteric site; other site 295358001586 active site lid [active] 295358001587 hexamer (dimer of trimers) interface [polypeptide binding]; other site 295358001588 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 295358001589 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 295358001590 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 295358001591 RNA binding surface [nucleotide binding]; other site 295358001592 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 295358001593 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 295358001594 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 295358001595 DNA binding site [nucleotide binding] 295358001596 catalytic residue [active] 295358001597 H2TH interface [polypeptide binding]; other site 295358001598 putative catalytic residues [active] 295358001599 turnover-facilitating residue; other site 295358001600 intercalation triad [nucleotide binding]; other site 295358001601 8OG recognition residue [nucleotide binding]; other site 295358001602 putative reading head residues; other site 295358001603 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 295358001604 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 295358001605 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 295358001606 active site 295358001607 substrate binding site [chemical binding]; other site 295358001608 ATP binding site [chemical binding]; other site 295358001609 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 295358001610 putative active site [active] 295358001611 putative catalytic site [active] 295358001612 putative Mg binding site IVb [ion binding]; other site 295358001613 putative phosphate binding site [ion binding]; other site 295358001614 putative DNA binding site [nucleotide binding]; other site 295358001615 putative Mg binding site IVa [ion binding]; other site 295358001616 5'-3' exonuclease; Provisional; Region: PRK14976 295358001617 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 295358001618 active site 295358001619 metal binding site 1 [ion binding]; metal-binding site 295358001620 putative 5' ssDNA interaction site; other site 295358001621 metal binding site 3; metal-binding site 295358001622 metal binding site 2 [ion binding]; metal-binding site 295358001623 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 295358001624 putative DNA binding site [nucleotide binding]; other site 295358001625 putative metal binding site [ion binding]; other site 295358001626 DNA polymerase III DnaE; Validated; Region: dnaE; PRK07135 295358001627 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 295358001628 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 295358001629 Ribosome-binding factor A; Region: RBFA; cl00542 295358001630 translation initiation factor IF-2; Region: IF-2; TIGR00487 295358001631 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 295358001632 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 295358001633 G1 box; other site 295358001634 putative GEF interaction site [polypeptide binding]; other site 295358001635 GTP/Mg2+ binding site [chemical binding]; other site 295358001636 Switch I region; other site 295358001637 G2 box; other site 295358001638 G3 box; other site 295358001639 Switch II region; other site 295358001640 G4 box; other site 295358001641 G5 box; other site 295358001642 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...; Region: IF2_mtIF2_II; cd03702 295358001643 Translation-initiation factor 2; Region: IF-2; pfam11987 295358001644 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...; Region: mtIF2_IVc; cd03692 295358001645 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 295358001646 putative RNA binding cleft [nucleotide binding]; other site 295358001647 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 295358001648 NusA N-terminal domain; Region: NusA_N; pfam08529 295358001649 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 295358001650 G-X-X-G motif; other site 295358001651 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...; Region: Sm_like; cl00259 295358001652 pullulanase, type I; Region: pulA_typeI; TIGR02104 295358001653 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 295358001654 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 295358001655 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 295358001656 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 295358001657 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 295358001658 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 295358001659 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 295358001660 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 295358001661 active site 295358001662 dimer interface [polypeptide binding]; other site 295358001663 motif 1; other site 295358001664 motif 2; other site 295358001665 motif 3; other site 295358001666 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 295358001667 anticodon binding site; other site 295358001668 tryptophanyl-tRNA synthetase; Region: trpS; TIGR00233 295358001669 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 295358001670 active site 295358001671 HIGH motif; other site 295358001672 dimer interface [polypeptide binding]; other site 295358001673 KMSKS motif; other site 295358001674 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...; Region: PTS_IIB_glc; cl00164 295358001675 active site turn [active] 295358001676 phosphorylation site [posttranslational modification] 295358001677 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 295358001678 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 295358001679 RNA/DNA hybrid binding site [nucleotide binding]; other site 295358001680 active site 295358001681 Uncharacterised protein family (UPF0154); Region: UPF0154; cl01536 295358001682 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 295358001683 Sulfatase; Region: Sulfatase; cl10460 295358001684 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 295358001685 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 295358001686 dimer interface [polypeptide binding]; other site 295358001687 substrate binding site [chemical binding]; other site 295358001688 metal binding sites [ion binding]; metal-binding site 295358001689 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 295358001690 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 295358001691 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...; Region: ABC_Carb_Monos_I; cd03216 295358001692 Walker A/P-loop; other site 295358001693 ATP binding site [chemical binding]; other site 295358001694 Q-loop/lid; other site 295358001695 ABC transporter signature motif; other site 295358001696 Walker B; other site 295358001697 D-loop; other site 295358001698 H-loop/switch region; other site 295358001699 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 295358001700 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 295358001701 TM-ABC transporter signature motif; other site 295358001702 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 295358001703 TM-ABC transporter signature motif; other site 295358001704 Thymidine kinase; Region: TK; cl00631 295358001705 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 295358001706 dimerization domain swap beta strand [polypeptide binding]; other site 295358001707 regulatory protein interface [polypeptide binding]; other site 295358001708 active site 295358001709 regulatory phosphorylation site [posttranslational modification]; other site 295358001710 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...; Region: PTS_IIA_glc; cl00162 295358001711 HPr interaction site; other site 295358001712 glycerol kinase (GK) interaction site [polypeptide binding]; other site 295358001713 active site 295358001714 phosphorylation site [posttranslational modification] 295358001715 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 295358001716 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 295358001717 cofactor binding site; other site 295358001718 DNA binding site [nucleotide binding] 295358001719 substrate interaction site [chemical binding]; other site 295358001720 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 295358001721 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 295358001722 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 295358001723 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 295358001724 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 295358001725 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional; Region: PRK14844 295358001726 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 295358001727 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 295358001728 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 295358001729 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 295358001730 G-loop; other site 295358001731 DNA binding site [nucleotide binding] 295358001732 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 295358001733 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 295358001734 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 295358001735 RPB1 interaction site [polypeptide binding]; other site 295358001736 RPB10 interaction site [polypeptide binding]; other site 295358001737 RPB11 interaction site [polypeptide binding]; other site 295358001738 RPB3 interaction site [polypeptide binding]; other site 295358001739 RPB12 interaction site [polypeptide binding]; other site 295358001740 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 295358001741 core dimer interface [polypeptide binding]; other site 295358001742 peripheral dimer interface [polypeptide binding]; other site 295358001743 L10 interface [polypeptide binding]; other site 295358001744 L11 interface [polypeptide binding]; other site 295358001745 putative EF-Tu interaction site [polypeptide binding]; other site 295358001746 putative EF-G interaction site [polypeptide binding]; other site 295358001747 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...; Region: Ribosomal_L10; cd05797 295358001748 23S rRNA interface [nucleotide binding]; other site 295358001749 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 295358001750 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 295358001751 DpnII restriction endonuclease; Region: DpnII; pfam04556 295358001752 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 295358001753 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001754 Walker A/P-loop; other site 295358001755 ATP binding site [chemical binding]; other site 295358001756 Q-loop/lid; other site 295358001757 ABC transporter signature motif; other site 295358001758 Walker B; other site 295358001759 D-loop; other site 295358001760 H-loop/switch region; other site 295358001761 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 295358001762 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...; Region: ABCC_MRP_Like; cd03228 295358001763 Walker A/P-loop; other site 295358001764 ATP binding site [chemical binding]; other site 295358001765 Q-loop/lid; other site 295358001766 ABC transporter signature motif; other site 295358001767 Walker B; other site 295358001768 D-loop; other site 295358001769 H-loop/switch region; other site 295358001770 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 295358001771 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 295358001772 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...; Region: ABCC_MRP_Like; cd03228 295358001773 Walker A/P-loop; other site 295358001774 ATP binding site [chemical binding]; other site 295358001775 Q-loop/lid; other site 295358001776 ABC transporter signature motif; other site 295358001777 Walker B; other site 295358001778 H-loop/switch region; other site 295358001779 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 295358001780 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 295358001781 Walker A/P-loop; other site 295358001782 ATP binding site [chemical binding]; other site 295358001783 Q-loop/lid; other site 295358001784 ABC transporter signature motif; other site 295358001785 Walker B; other site 295358001786 D-loop; other site 295358001787 H-loop/switch region; other site 295358001788 Domain of unknown function DUF31; Region: DUF31; pfam01732 295358001789 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 295358001790 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 295358001791 putative active site [active] 295358001792 putative metal binding site [ion binding]; other site 295358001793 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 295358001794 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 295358001795 putative acyl-acceptor binding pocket; other site 295358001796 ScpA/B protein; Region: ScpA_ScpB; cl00598 295358001797 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 295358001798 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 295358001799 putative glycoprotease GCP; Region: bact_gcp; TIGR03723 295358001800 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 295358001801 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 295358001802 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 295358001803 putative homodimer interface [polypeptide binding]; other site 295358001804 KOW motif; Region: KOW; cl00354 295358001805 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 295358001806 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 295358001807 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 295358001808 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 295358001809 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 295358001810 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 295358001811 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 295358001812 active site 295358001813 HIGH motif; other site 295358001814 nucleotide binding site [chemical binding]; other site 295358001815 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 295358001816 active site 295358001817 KMSKS motif; other site 295358001818 Protein of unknown function DUF45; Region: DUF45; cl00636 295358001819 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 295358001820 Domain of unknown function DUF21; Region: DUF21; pfam01595 295358001821 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 295358001822 replicative DNA helicase; Region: DnaB; TIGR00665 295358001823 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 295358001824 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 295358001825 Walker A motif; other site 295358001826 ATP binding site [chemical binding]; other site 295358001827 Walker B motif; other site 295358001828 DNA binding loops [nucleotide binding] 295358001829 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 295358001830 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 295358001831 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 295358001832 DHH family; Region: DHH; pfam01368 295358001833 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 295358001834 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 295358001835 HIGH motif; other site 295358001836 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 295358001837 active site 295358001838 KMSKS motif; other site 295358001839 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 295358001840 tRNA binding surface [nucleotide binding]; other site 295358001841 anticodon binding site; other site 295358001842 excinuclease ABC subunit B; Provisional; Region: PRK05298 295358001843 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 295358001844 ATP binding site [chemical binding]; other site 295358001845 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 295358001846 nucleotide binding region [chemical binding]; other site 295358001847 ATP-binding site [chemical binding]; other site 295358001848 Ultra-violet resistance protein B; Region: UvrB; pfam12344 295358001849 UvrB/uvrC motif; Region: UVR; pfam02151 295358001850 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 295358001851 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 295358001852 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 295358001853 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 295358001854 23S rRNA interface [nucleotide binding]; other site 295358001855 L3 interface [polypeptide binding]; other site 295358001856 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; cl12011 295358001857 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 295358001858 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 295358001859 active site 295358001860 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 295358001861 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 295358001862 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; cl12011 295358001863 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 295358001864 active site 295358001865 catalytic triad [active] 295358001866 oxyanion hole [active] 295358001867 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 295358001868 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 295358001869 Walker A/P-loop; other site 295358001870 ATP binding site [chemical binding]; other site 295358001871 Q-loop/lid; other site 295358001872 ABC transporter signature motif; other site 295358001873 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 295358001874 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 295358001875 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 295358001876 Q-loop/lid; other site 295358001877 ABC transporter signature motif; other site 295358001878 Walker B; other site 295358001879 D-loop; other site 295358001880 H-loop/switch region; other site 295358001881 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 295358001882 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 295358001883 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 295358001884 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 295358001885 active site 295358001886 mycoides cluster lipoprotein, LppA/P72 family; Region: Mycoplas_LppA; TIGR03490 295358001887 mycoides cluster lipoprotein, LppA/P72 family; Region: Mycoplas_LppA; TIGR03490 295358001888 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 295358001889 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...; Region: ABCC_MRP_Like; cd03228 295358001890 Walker A/P-loop; other site 295358001891 ATP binding site [chemical binding]; other site 295358001892 Q-loop/lid; other site 295358001893 ABC transporter signature motif; other site 295358001894 Walker B; other site 295358001895 D-loop; other site 295358001896 H-loop/switch region; other site 295358001897 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 295358001898 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...; Region: ABCC_MRP_Like; cd03228 295358001899 Walker A/P-loop; other site 295358001900 ATP binding site [chemical binding]; other site 295358001901 Q-loop/lid; other site 295358001902 ABC transporter signature motif; other site 295358001903 Walker B; other site 295358001904 D-loop; other site 295358001905 H-loop/switch region; other site 295358001906 domain; Region: GreA_GreB_N; pfam03449 295358001907 C-term; Region: GreA_GreB; pfam01272 295358001908 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 295358001909 MatE; Region: MatE; pfam01554 295358001910 hypothetical protein; Provisional; Region: PRK09609 295358001911 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 295358001912 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 295358001913 active site 295358001914 HIGH motif; other site 295358001915 nucleotide binding site [chemical binding]; other site 295358001916 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 295358001917 active site 295358001918 KMSKS motif; other site 295358001919 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 295358001920 tRNA binding surface [nucleotide binding]; other site 295358001921 anticodon binding site; other site 295358001922 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 295358001923 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 295358001924 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 295358001925 Ribosomal protein L34; Region: Ribosomal_L34; cl00370