-- dump date 20111121_013405 -- class Genbank::misc_feature -- table misc_feature_note -- id note 956483000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 956483000002 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 956483000003 Walker A motif; other site 956483000004 ATP binding site [chemical binding]; other site 956483000005 Walker B motif; other site 956483000006 arginine finger; other site 956483000007 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 956483000008 DnaA box-binding interface [nucleotide binding]; other site 956483000009 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; cl02940 956483000010 putative DNA binding surface [nucleotide binding]; other site 956483000011 DNA polymerase III beta subunit; Region: POL3Bc; smart00480 956483000012 dimer interface [polypeptide binding]; other site 956483000013 beta-clamp/clamp loader binding surface; other site 956483000014 beta-clamp/translesion DNA polymerase binding surface; other site 956483000015 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 956483000016 putative transposase OrfB; Reviewed; Region: PHA02517 956483000017 Integrase core domain; Region: rve; cl01316 956483000018 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 956483000019 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 956483000020 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 956483000021 nucleophilic elbow; other site 956483000022 catalytic triad; other site 956483000023 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 956483000024 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 956483000025 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 956483000026 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 956483000027 putative active site [active] 956483000028 putative FMN binding site [chemical binding]; other site 956483000029 putative substrate binding site [chemical binding]; other site 956483000030 putative catalytic residue [active] 956483000031 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 956483000032 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 956483000033 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 956483000034 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 956483000035 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 956483000036 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 956483000037 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 956483000038 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 956483000039 lipoyl-biotinyl attachment site [posttranslational modification]; other site 956483000040 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 956483000041 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 956483000042 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 956483000043 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000044 Walker A/P-loop; other site 956483000045 ATP binding site [chemical binding]; other site 956483000046 Q-loop/lid; other site 956483000047 ABC transporter signature motif; other site 956483000048 Walker B; other site 956483000049 D-loop; other site 956483000050 H-loop/switch region; other site 956483000051 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 956483000052 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 956483000053 TM-ABC transporter signature motif; other site 956483000054 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 956483000055 Sds3-like; Region: Sds3; pfam08598 956483000056 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 956483000057 TM-ABC transporter signature motif; other site 956483000058 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 956483000059 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000060 Active site [active] 956483000061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000062 Active site [active] 956483000063 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 956483000064 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 956483000065 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 956483000066 substrate binding site [chemical binding]; other site 956483000067 ATP binding site [chemical binding]; other site 956483000068 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 956483000069 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 956483000070 active site 956483000071 motif I; other site 956483000072 motif II; other site 956483000073 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 956483000074 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 956483000075 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 956483000076 Walker A/P-loop; other site 956483000077 ATP binding site [chemical binding]; other site 956483000078 Q-loop/lid; other site 956483000079 ABC transporter signature motif; other site 956483000080 Walker B; other site 956483000081 D-loop; other site 956483000082 H-loop/switch region; other site 956483000083 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000084 Walker A/P-loop; other site 956483000085 ATP binding site [chemical binding]; other site 956483000086 Q-loop/lid; other site 956483000087 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 956483000088 ABC transporter signature motif; other site 956483000089 Walker B; other site 956483000090 D-loop; other site 956483000091 H-loop/switch region; other site 956483000092 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 956483000093 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 956483000094 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 956483000095 Walker A/P-loop; other site 956483000096 ATP binding site [chemical binding]; other site 956483000097 Q-loop/lid; other site 956483000098 ABC transporter signature motif; other site 956483000099 Walker B; other site 956483000100 D-loop; other site 956483000101 H-loop/switch region; other site 956483000102 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 956483000103 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 956483000104 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 956483000105 dimer interface [polypeptide binding]; other site 956483000106 conserved gate region; other site 956483000107 putative PBP binding loops; other site 956483000108 ABC-ATPase subunit interface; other site 956483000109 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 956483000110 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 956483000111 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 956483000112 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 956483000113 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 956483000114 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 956483000115 Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: CysS; COG0215 956483000116 active site 956483000117 HIGH motif; other site 956483000118 nucleotide binding site [chemical binding]; other site 956483000119 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 956483000120 active site 956483000121 KMSKS motif; other site 956483000122 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 956483000123 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 956483000124 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 956483000125 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 956483000126 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 956483000127 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 956483000128 putative homodimer interface [polypeptide binding]; other site 956483000129 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 956483000130 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 956483000131 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 956483000132 putative nucleotide binding site [chemical binding]; other site 956483000133 uridine monophosphate binding site [chemical binding]; other site 956483000134 homohexameric interface [polypeptide binding]; other site 956483000135 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 956483000136 hinge region; other site 956483000137 Competence protein; Region: Competence; cl00471 956483000138 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 956483000139 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 956483000140 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 956483000141 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 956483000142 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 956483000143 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 956483000144 active site 956483000145 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 956483000146 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 956483000147 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 956483000148 G1 box; other site 956483000149 GTP/Mg2+ binding site [chemical binding]; other site 956483000150 Switch I region; other site 956483000151 G2 box; other site 956483000152 Switch II region; other site 956483000153 G3 box; other site 956483000154 G4 box; other site 956483000155 G5 box; other site 956483000156 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 956483000157 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 956483000158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 956483000159 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 956483000160 seryl-tRNA synthetase; Provisional; Region: PRK05431 956483000161 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 956483000162 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 956483000163 dimer interface [polypeptide binding]; other site 956483000164 active site 956483000165 motif 1; other site 956483000166 motif 2; other site 956483000167 motif 3; other site 956483000168 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 956483000169 active site 956483000170 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 956483000171 Ribonuclease P; Region: Ribonuclease_P; cl00457 956483000172 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 956483000173 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 956483000174 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 956483000175 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 956483000176 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 956483000177 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 956483000178 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 956483000179 PQ loop repeat; Region: PQ-loop; cl12056 956483000180 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 956483000181 motif 1; other site 956483000182 dimer interface [polypeptide binding]; other site 956483000183 active site 956483000184 motif 2; other site 956483000185 motif 3; other site 956483000186 DNA polymerase III PolC; Validated; Region: polC; PRK00448 956483000187 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 956483000188 generic binding surface II; other site 956483000189 generic binding surface I; other site 956483000190 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 956483000191 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 956483000192 active site 956483000193 substrate binding site [chemical binding]; other site 956483000194 catalytic site [active] 956483000195 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 956483000196 recombination factor protein RarA; Reviewed; Region: PRK13342 956483000197 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 956483000198 Walker A motif; other site 956483000199 ATP binding site [chemical binding]; other site 956483000200 Walker B motif; other site 956483000201 arginine finger; other site 956483000202 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 956483000203 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 956483000204 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 956483000205 dimer interface [polypeptide binding]; other site 956483000206 motif 1; other site 956483000207 active site 956483000208 motif 2; other site 956483000209 motif 3; other site 956483000210 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 956483000211 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 956483000212 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 956483000213 putative tRNA-binding site [nucleotide binding]; other site 956483000214 B3/4 domain; Region: B3_4; cl11458 956483000215 tRNA synthetase B5 domain; Region: B5; cl08394 956483000216 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 956483000217 motif 1; other site 956483000218 dimer interface [polypeptide binding]; other site 956483000219 motif 2; other site 956483000220 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 956483000221 dimer interface [polypeptide binding]; other site 956483000222 glycine-pyridoxal phosphate binding site [chemical binding]; other site 956483000223 active site 956483000224 folate binding site [chemical binding]; other site 956483000225 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 956483000226 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 956483000227 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 956483000228 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 956483000229 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 956483000230 catalytic residue [active] 956483000231 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 956483000232 trimerization site [polypeptide binding]; other site 956483000233 active site 956483000234 DNA polymerase IV; Validated; Region: PRK01810 956483000235 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 956483000236 active site 956483000237 DNA binding site [nucleotide binding] 956483000238 putative nicotinate-nucleotide adenylyltransferase; Validated; Region: nadD; PRK07152 956483000239 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 956483000240 active site 956483000241 (T/H)XGH motif; other site 956483000242 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 956483000243 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 956483000244 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 956483000245 RNA binding surface [nucleotide binding]; other site 956483000246 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 956483000247 active site 956483000248 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 956483000249 hypothetical protein; Provisional; Region: PRK08185 956483000250 intersubunit interface [polypeptide binding]; other site 956483000251 active site 956483000252 zinc binding site [ion binding]; other site 956483000253 Na+ binding site [ion binding]; other site 956483000254 Staphylococcal nuclease homologues; Region: SNc; smart00318 956483000255 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 956483000256 Catalytic site; other site 956483000257 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 956483000258 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 956483000259 23S rRNA interface [nucleotide binding]; other site 956483000260 L7/L12 interface [polypeptide binding]; other site 956483000261 putative thiostrepton binding site; other site 956483000262 L25 interface [polypeptide binding]; other site 956483000263 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 956483000264 mRNA/rRNA interface [nucleotide binding]; other site 956483000265 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 956483000266 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 956483000267 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 956483000268 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 956483000269 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 956483000270 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 956483000271 GTP/Mg2+ binding site [chemical binding]; other site 956483000272 G4 box; other site 956483000273 G5 box; other site 956483000274 G1 box; other site 956483000275 Switch I region; other site 956483000276 G2 box; other site 956483000277 G3 box; other site 956483000278 Switch II region; other site 956483000279 HPr kinase/phosphorylase; Provisional; Region: PRK05428 956483000280 DRTGG domain; Region: DRTGG; cl12147 956483000281 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-...; Region: HprK_C; cd01918 956483000282 Hpr binding site; other site 956483000283 active site 956483000284 homohexamer subunit interaction site [polypeptide binding]; other site 956483000285 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 956483000286 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 956483000287 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 956483000288 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 956483000289 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 956483000290 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 956483000291 tetramer interface [polypeptide binding]; other site 956483000292 TPP-binding site [chemical binding]; other site 956483000293 heterodimer interface [polypeptide binding]; other site 956483000294 phosphorylation loop region [posttranslational modification] 956483000295 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 956483000296 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 956483000297 alpha subunit interface [polypeptide binding]; other site 956483000298 TPP binding site [chemical binding]; other site 956483000299 heterodimer interface [polypeptide binding]; other site 956483000300 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 956483000301 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 956483000302 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 956483000303 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 956483000304 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 956483000305 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 956483000306 Integrase core domain; Region: rve; cl01316 956483000307 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 956483000308 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 956483000309 conserved cys residue [active] 956483000310 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 956483000311 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 956483000312 dimer interface [polypeptide binding]; other site 956483000313 conserved gate region; other site 956483000314 putative PBP binding loops; other site 956483000315 ABC-ATPase subunit interface; other site 956483000316 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 956483000317 dimer interface [polypeptide binding]; other site 956483000318 conserved gate region; other site 956483000319 putative PBP binding loops; other site 956483000320 ABC-ATPase subunit interface; other site 956483000321 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 956483000322 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 956483000323 Walker A/P-loop; other site 956483000324 ATP binding site [chemical binding]; other site 956483000325 Q-loop/lid; other site 956483000326 ABC transporter signature motif; other site 956483000327 Walker B; other site 956483000328 D-loop; other site 956483000329 H-loop/switch region; other site 956483000330 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 956483000331 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 956483000332 Walker A/P-loop; other site 956483000333 ATP binding site [chemical binding]; other site 956483000334 Q-loop/lid; other site 956483000335 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14246 956483000336 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 956483000337 ABC transporter signature motif; other site 956483000338 Walker B; other site 956483000339 D-loop; other site 956483000340 H-loop/switch region; other site 956483000341 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 956483000342 Uncharacterized conserved protein [Function unknown]; Region: COG1284 956483000343 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]; Region: CYK3; COG5279 956483000344 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 956483000345 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 956483000346 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The...; Region: Peptidase_C39_like; cl00296 956483000347 putative active site [active] 956483000348 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000349 Walker A/P-loop; other site 956483000350 ATP binding site [chemical binding]; other site 956483000351 Q-loop/lid; other site 956483000352 ABC transporter signature motif; other site 956483000353 Walker B; other site 956483000354 D-loop; other site 956483000355 H-loop/switch region; other site 956483000356 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 956483000357 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 956483000358 active site 956483000359 catalytic motif [active] 956483000360 Zn binding site [ion binding]; other site 956483000361 GTPase Era; Reviewed; Region: era; PRK00089 956483000362 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 956483000363 G1 box; other site 956483000364 GTP/Mg2+ binding site [chemical binding]; other site 956483000365 Switch I region; other site 956483000366 G2 box; other site 956483000367 Switch II region; other site 956483000368 G3 box; other site 956483000369 G4 box; other site 956483000370 G5 box; other site 956483000371 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 956483000372 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 956483000373 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 956483000374 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 956483000375 active site 956483000376 prolyl-tRNA synthetase; Provisional; Region: PRK08661 956483000377 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 956483000378 dimer interface [polypeptide binding]; other site 956483000379 motif 1; other site 956483000380 active site 956483000381 motif 2; other site 956483000382 motif 3; other site 956483000383 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity...; Region: ProRS_anticodon_zinc; cd00862 956483000384 anticodon binding site; other site 956483000385 zinc-binding site [ion binding]; other site 956483000386 LemA family; Region: LemA; cl00742 956483000387 putative phosphoketolase; Provisional; Region: PRK05261 956483000388 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin...; Region: TPP_enzymes; cl01629 956483000389 TPP-binding site [chemical binding]; other site 956483000390 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 956483000391 XFP C-terminal domain; Region: XFP_C; pfam09363 956483000392 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 956483000393 Integrase core domain; Region: rve; cl01316 956483000394 oligoendopeptidase F; Region: pepF; TIGR00181 956483000395 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 956483000396 active site 956483000397 Zn binding site [ion binding]; other site 956483000398 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000399 Walker A/P-loop; other site 956483000400 ATP binding site [chemical binding]; other site 956483000401 Q-loop/lid; other site 956483000402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000403 ABC transporter signature motif; other site 956483000404 Walker B; other site 956483000405 D-loop; other site 956483000406 H-loop/switch region; other site 956483000407 TOBE domain; Region: TOBE_2; cl01440 956483000408 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 956483000409 dimer interface [polypeptide binding]; other site 956483000410 conserved gate region; other site 956483000411 putative PBP binding loops; other site 956483000412 ABC-ATPase subunit interface; other site 956483000413 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 956483000414 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 956483000415 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 956483000416 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 956483000417 Integrase core domain; Region: rve; cl01316 956483000418 variable surface protein Vir28; Provisional; Region: PTZ00249 956483000419 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 956483000420 THUMP domain; Region: THUMP; cl12076 956483000421 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 956483000422 Ligand Binding Site [chemical binding]; other site 956483000423 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483000424 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483000425 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483000426 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483000427 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 956483000428 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 956483000429 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 956483000430 active site 956483000431 HIGH motif; other site 956483000432 nucleotide binding site [chemical binding]; other site 956483000433 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 956483000434 active site 956483000435 KMSKS motif; other site 956483000436 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 956483000437 tRNA binding surface [nucleotide binding]; other site 956483000438 anticodon binding site; other site 956483000439 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 956483000440 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 956483000441 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 956483000442 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 956483000443 homodimer interface [polypeptide binding]; other site 956483000444 NADP binding site [chemical binding]; other site 956483000445 substrate binding site [chemical binding]; other site 956483000446 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 956483000447 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 956483000448 Acetokinase family; Region: Acetate_kinase; cl01029 956483000449 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 956483000450 active site 956483000451 nucleotide binding site [chemical binding]; other site 956483000452 HIGH motif; other site 956483000453 KMSKS motif; other site 956483000454 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 956483000455 G1 box; other site 956483000456 GTP/Mg2+ binding site [chemical binding]; other site 956483000457 Switch I region; other site 956483000458 G2 box; other site 956483000459 G3 box; other site 956483000460 Switch II region; other site 956483000461 G4 box; other site 956483000462 G5 box; other site 956483000463 pyruvate kinase; Provisional; Region: PRK05826 956483000464 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 956483000465 domain interfaces; other site 956483000466 active site 956483000467 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 956483000468 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 956483000469 Glucose inhibited division protein A; Region: GIDA; pfam01134 956483000470 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 956483000471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 956483000472 potential frameshift: common BLAST hit: gi|313678283|ref|YP_004056023.1| lipase/esterase LIP3/BchO family 956483000473 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 956483000474 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 956483000475 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 956483000476 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 956483000477 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 956483000478 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 956483000479 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 956483000480 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 956483000481 trigger factor; Region: tig; TIGR00115 956483000482 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 956483000483 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 956483000484 Integrase core domain; Region: rve; cl01316 956483000485 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 956483000486 active site 956483000487 catalytic residues [active] 956483000488 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 956483000489 5'-3' exonuclease; Provisional; Region: PRK14976 956483000490 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 956483000491 active site 956483000492 metal binding site 1 [ion binding]; metal-binding site 956483000493 putative 5' ssDNA interaction site; other site 956483000494 metal binding site 3; metal-binding site 956483000495 metal binding site 2 [ion binding]; metal-binding site 956483000496 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 956483000497 putative DNA binding site [nucleotide binding]; other site 956483000498 putative metal binding site [ion binding]; other site 956483000499 DNA polymerase III DnaE; Validated; Region: dnaE; PRK07135 956483000500 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 956483000501 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 956483000502 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 956483000503 active site 956483000504 catalytic residues [active] 956483000505 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 956483000506 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 956483000507 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 956483000508 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 956483000509 MatE; Region: MatE; pfam01554 956483000510 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 956483000511 S-adenosylmethionine binding site [chemical binding]; other site 956483000512 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(...; Region: Pep_deformylase; cl00234 956483000513 active site 956483000514 catalytic residues [active] 956483000515 metal binding site [ion binding]; metal-binding site 956483000516 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 956483000517 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 956483000518 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 956483000519 anchoring element; other site 956483000520 dimer interface [polypeptide binding]; other site 956483000521 ATP binding site [chemical binding]; other site 956483000522 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 956483000523 active site 956483000524 metal binding site [ion binding]; metal-binding site 956483000525 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 956483000526 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 956483000527 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 956483000528 CAP-like domain; other site 956483000529 Active site [active] 956483000530 primary dimer interface [polypeptide binding]; other site 956483000531 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 956483000532 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 956483000533 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 956483000534 active site 956483000535 motif I; other site 956483000536 motif II; other site 956483000537 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 956483000538 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 956483000539 RNA/DNA hybrid binding site [nucleotide binding]; other site 956483000540 active site 956483000541 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 956483000542 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 956483000543 cofactor binding site; other site 956483000544 DNA binding site [nucleotide binding] 956483000545 substrate interaction site [chemical binding]; other site 956483000546 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 956483000547 potential frameshift: common BLAST hit: gi|313678806|ref|YP_004056546.1| ISMbov1, transposase 956483000548 Integrase core domain; Region: rve; cl01316 956483000549 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 956483000550 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 956483000551 Endonuclease I; Region: Endonuclease_1; cl01003 956483000552 transketolase; Reviewed; Region: PRK05899 956483000553 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 956483000554 TPP-binding site [chemical binding]; other site 956483000555 dimer interface [polypeptide binding]; other site 956483000556 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 956483000557 PYR/PP interface [polypeptide binding]; other site 956483000558 dimer interface [polypeptide binding]; other site 956483000559 TPP binding site [chemical binding]; other site 956483000560 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 956483000561 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 956483000562 dimer interface [polypeptide binding]; other site 956483000563 substrate binding site [chemical binding]; other site 956483000564 metal binding sites [ion binding]; metal-binding site 956483000565 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 956483000566 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 956483000567 nucleotide binding site/active site [active] 956483000568 HIT family signature motif; other site 956483000569 catalytic residue [active] 956483000570 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 956483000571 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 956483000572 dimer interface [polypeptide binding]; other site 956483000573 catalytic triad [active] 956483000574 peroxidatic and resolving cysteines [active] 956483000575 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 956483000576 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 956483000577 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 956483000578 P loop; other site 956483000579 GTP binding site [chemical binding]; other site 956483000580 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 956483000581 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 956483000582 active site 956483000583 HIGH motif; other site 956483000584 KMSKS motif; other site 956483000585 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 956483000586 tRNA binding surface [nucleotide binding]; other site 956483000587 anticodon binding site; other site 956483000588 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 956483000589 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 956483000590 S-adenosylmethionine binding site [chemical binding]; other site 956483000591 ribonuclease R; Region: RNase_R; TIGR02063 956483000592 RNB domain; Region: RNB; pfam00773 956483000593 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 956483000594 RNA binding site [nucleotide binding]; other site 956483000595 Preprotein translocase SecG subunit; Region: SecG; cl09123 956483000596 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 956483000597 catalytic site [active] 956483000598 G-X2-G-X-G-K; other site 956483000599 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 956483000600 Active site [active] 956483000601 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 956483000602 Protein kinase domain; Region: Pkinase; pfam00069 956483000603 active site 956483000604 ATP binding site [chemical binding]; other site 956483000605 substrate binding site [chemical binding]; other site 956483000606 activation loop (A-loop); other site 956483000607 GTPase RsgA; Reviewed; Region: PRK00098 956483000608 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 956483000609 GTPase/OB domain interface [polypeptide binding]; other site 956483000610 GTPase/Zn-binding domain interface [polypeptide binding]; other site 956483000611 GTP/Mg2+ binding site [chemical binding]; other site 956483000612 G4 box; other site 956483000613 G5 box; other site 956483000614 G1 box; other site 956483000615 Switch I region; other site 956483000616 G2 box; other site 956483000617 G3 box; other site 956483000618 Switch II region; other site 956483000619 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 956483000620 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 956483000621 substrate binding site [chemical binding]; other site 956483000622 hexamer interface [polypeptide binding]; other site 956483000623 metal binding site [ion binding]; metal-binding site 956483000624 RecD/TraA family; Region: recD_rel; TIGR01448 956483000625 UvrD/REP helicase; Region: UvrD-helicase; cl14126 956483000626 UvrD/REP helicase; Region: UvrD-helicase; cl14126 956483000627 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 956483000628 Transposase [DNA replication, recombination, and repair]; Region: COG5421 956483000629 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 956483000630 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 956483000631 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 956483000632 Walker A motif; other site 956483000633 ATP binding site [chemical binding]; other site 956483000634 Walker B motif; other site 956483000635 arginine finger; other site 956483000636 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 956483000637 active site 956483000638 catalytic triad [active] 956483000639 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 956483000640 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 956483000641 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 956483000642 ATP binding site [chemical binding]; other site 956483000643 putative Mg++ binding site [ion binding]; other site 956483000644 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 956483000645 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 956483000646 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 956483000647 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 956483000648 DNA binding site [nucleotide binding] 956483000649 Int/Topo IB signature motif; other site 956483000650 active site 956483000651 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 956483000652 CTP synthetase; Validated; Region: pyrG; PRK05380 956483000653 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 956483000654 Catalytic site [active] 956483000655 Active site [active] 956483000656 UTP binding site [chemical binding]; other site 956483000657 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 956483000658 active site 956483000659 putative oxyanion hole; other site 956483000660 catalytic triad [active] 956483000661 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 956483000662 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 956483000663 active site 956483000664 HIGH motif; other site 956483000665 nucleotide binding site [chemical binding]; other site 956483000666 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 956483000667 active site 956483000668 KMSKS motif; other site 956483000669 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 956483000670 tRNA binding surface [nucleotide binding]; other site 956483000671 anticodon binding site; other site 956483000672 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 956483000673 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 956483000674 RuvA N terminal domain; Region: RuvA_N; pfam01330 956483000675 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 956483000676 Holliday junction DNA helicase, RuvB subunit; Region: ruvB; TIGR00635 956483000677 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 956483000678 Walker A motif; other site 956483000679 ATP binding site [chemical binding]; other site 956483000680 Walker B motif; other site 956483000681 arginine finger; other site 956483000682 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 956483000683 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 956483000684 Protein export membrane protein; Region: SecD_SecF; cl14618 956483000685 Protein export membrane protein; Region: SecD_SecF; cl14618 956483000686 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02193 956483000687 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 956483000688 RNA binding site [nucleotide binding]; other site 956483000689 active site 956483000690 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 956483000691 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 956483000692 active site 956483000693 motif I; other site 956483000694 motif II; other site 956483000695 hypothetical protein; Provisional; Region: PRK07143 956483000696 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 956483000697 active site 956483000698 nucleotide binding site [chemical binding]; other site 956483000699 HIGH motif; other site 956483000700 KMSKS motif; other site 956483000701 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 956483000702 16S/18S rRNA binding site [nucleotide binding]; other site 956483000703 S13e-L30e interaction site [polypeptide binding]; other site 956483000704 25S rRNA binding site [nucleotide binding]; other site 956483000705 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 956483000706 potential frameshift: common BLAST hit: gi|148377497|ref|YP_001256373.1| glycerol ABC transporter, ATP-bindingcomponent 956483000707 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000708 Walker A/P-loop; other site 956483000709 ATP binding site [chemical binding]; other site 956483000710 Q-loop/lid; other site 956483000711 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000712 ABC transporter signature motif; other site 956483000713 Walker B; other site 956483000714 D-loop; other site 956483000715 H-loop/switch region; other site 956483000716 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 956483000717 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 956483000718 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 956483000719 DHH family; Region: DHH; pfam01368 956483000720 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 956483000721 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 956483000722 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 956483000723 replicative DNA helicase; Region: DnaB; TIGR00665 956483000724 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 956483000725 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 956483000726 Walker A motif; other site 956483000727 ATP binding site [chemical binding]; other site 956483000728 Walker B motif; other site 956483000729 DNA binding loops [nucleotide binding] 956483000730 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 956483000731 Domain of unknown function DUF21; Region: DUF21; pfam01595 956483000732 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 956483000733 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 956483000734 putative transposase OrfB; Reviewed; Region: PHA02517 956483000735 Integrase core domain; Region: rve; cl01316 956483000736 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 956483000737 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 956483000738 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 956483000739 Protein of unknown function (DUF1168); Region: DUF1168; pfam06658 956483000740 RmuC family; Region: RmuC; pfam02646 956483000741 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 956483000742 Active site serine [active] 956483000743 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 956483000744 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 956483000745 rRNA interaction site [nucleotide binding]; other site 956483000746 S8 interaction site; other site 956483000747 putative laminin-1 binding site; other site 956483000748 elongation factor Ts; Provisional; Region: tsf; PRK09377 956483000749 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 956483000750 Elongation factor TS; Region: EF_TS; pfam00889 956483000751 Elongation factor TS; Region: EF_TS; pfam00889 956483000752 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 956483000753 Active site serine [active] 956483000754 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 956483000755 dUTPase; Region: dUTPase_2; pfam08761 956483000756 Transposase [DNA replication, recombination, and repair]; Region: COG5421 956483000757 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 956483000758 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 956483000759 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 956483000760 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 956483000761 Uncharacterized conserved protein [Function unknown]; Region: COG0327 956483000762 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 956483000763 RNA polymerase sigma factor; Provisional; Region: PRK05901 956483000764 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 956483000765 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 956483000766 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 956483000767 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 956483000768 DNA primase, catalytic core; Region: dnaG; TIGR01391 956483000769 CHC2 zinc finger; Region: zf-CHC2; cl02597 956483000770 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 956483000771 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 956483000772 active site 956483000773 metal binding site [ion binding]; metal-binding site 956483000774 interdomain interaction site; other site 956483000775 glycyl-tRNA synthetase; Provisional; Region: PRK04173 956483000776 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 956483000777 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 956483000778 active site 956483000779 motif 2; other site 956483000780 motif 3; other site 956483000781 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 956483000782 anticodon binding site; other site 956483000783 High affinity transport system protein p37; Region: Mycoplasma_p37; pfam06646 956483000784 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 956483000785 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000786 Walker A/P-loop; other site 956483000787 ATP binding site [chemical binding]; other site 956483000788 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000789 Q-loop/lid; other site 956483000790 ABC transporter signature motif; other site 956483000791 Walker B; other site 956483000792 D-loop; other site 956483000793 H-loop/switch region; other site 956483000794 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 956483000795 dimer interface [polypeptide binding]; other site 956483000796 conserved gate region; other site 956483000797 putative PBP binding loops; other site 956483000798 ABC-ATPase subunit interface; other site 956483000799 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 956483000800 dimer interface [polypeptide binding]; other site 956483000801 conserved gate region; other site 956483000802 putative PBP binding loops; other site 956483000803 ABC-ATPase subunit interface; other site 956483000804 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; cl11557 956483000805 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12903 956483000806 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 956483000807 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 956483000808 nucleotide binding region [chemical binding]; other site 956483000809 ATP-binding site [chemical binding]; other site 956483000810 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 956483000811 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 956483000812 catalytic Zn binding site [ion binding]; other site 956483000813 structural Zn binding site [ion binding]; other site 956483000814 NAD(P) binding site [chemical binding]; other site 956483000815 DNA topoisomerase I; Validated; Region: PRK05582 956483000816 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in...; Region: TOPRIM_TopoIA_TopoI; cd03363 956483000817 active site 956483000818 interdomain interaction site; other site 956483000819 putative metal-binding site [ion binding]; other site 956483000820 nucleotide binding site [chemical binding]; other site 956483000821 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; cd00186 956483000822 domain I; other site 956483000823 DNA binding groove [nucleotide binding] 956483000824 phosphate binding site [ion binding]; other site 956483000825 domain II; other site 956483000826 domain III; other site 956483000827 nucleotide binding site [chemical binding]; other site 956483000828 catalytic site [active] 956483000829 domain IV; other site 956483000830 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 956483000831 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 956483000832 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 956483000833 dimer interface [polypeptide binding]; other site 956483000834 ssDNA binding site [nucleotide binding]; other site 956483000835 tetramer (dimer of dimers) interface [polypeptide binding]; other site 956483000836 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 956483000837 Integrase core domain; Region: rve; cl01316 956483000838 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 956483000839 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 956483000840 histidyl-tRNA synthetase; Region: hisS; TIGR00442 956483000841 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 956483000842 dimer interface [polypeptide binding]; other site 956483000843 motif 1; other site 956483000844 active site 956483000845 motif 2; other site 956483000846 motif 3; other site 956483000847 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 956483000848 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 956483000849 dimer interface [polypeptide binding]; other site 956483000850 anticodon binding site; other site 956483000851 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 956483000852 homodimer interface [polypeptide binding]; other site 956483000853 motif 1; other site 956483000854 active site 956483000855 motif 2; other site 956483000856 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 956483000857 active site 956483000858 motif 3; other site 956483000859 putative transposase OrfB; Reviewed; Region: PHA02517 956483000860 Integrase core domain; Region: rve; cl01316 956483000861 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 956483000862 amphipathic channel; other site 956483000863 Asn-Pro-Ala signature motifs; other site 956483000864 glycerol kinase; Provisional; Region: glpK; PRK00047 956483000865 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 956483000866 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 956483000867 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 956483000868 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 956483000869 DHH family; Region: DHH; pfam01368 956483000870 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 956483000871 DHH family; Region: DHH; pfam01368 956483000872 DHHA1 domain; Region: DHHA1; pfam02272 956483000873 Recombination protein O N terminal; Region: RecO_N; pfam11967 956483000874 DNA repair protein RecO; Region: reco; TIGR00613 956483000875 Recombination protein O C terminal; Region: RecO_C; pfam02565 956483000876 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 956483000877 DAK2 domain; Region: Dak2; cl03685 956483000878 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 956483000879 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 956483000880 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 956483000881 dimerization interface [polypeptide binding]; other site 956483000882 active site 956483000883 metal binding site [ion binding]; metal-binding site 956483000884 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 956483000885 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 956483000886 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 956483000887 Walker A/P-loop; other site 956483000888 ATP binding site [chemical binding]; other site 956483000889 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 956483000890 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 956483000891 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 956483000892 ABC transporter signature motif; other site 956483000893 Walker B; other site 956483000894 D-loop; other site 956483000895 H-loop/switch region; other site 956483000896 Uncharacterized conserved protein [Function unknown]; Region: COG1284 956483000897 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 956483000898 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 956483000899 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 956483000900 active site 956483000901 motif I; other site 956483000902 motif II; other site 956483000903 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 956483000904 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 956483000905 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 956483000906 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 956483000907 NAD binding site [chemical binding]; other site 956483000908 substrate binding site [chemical binding]; other site 956483000909 catalytic Zn binding site [ion binding]; other site 956483000910 tetramer interface [polypeptide binding]; other site 956483000911 structural Zn binding site [ion binding]; other site 956483000912 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 956483000913 active site 956483000914 potential frameshift: common BLAST hit: gi|291320574|ref|YP_003515838.1| aminopeptidase 956483000915 M28, and M42; Region: Zinc_peptidase_like; cl14876 956483000916 M28, and M42; Region: Zinc_peptidase_like; cl14876 956483000917 potential frameshift: common BLAST hit: gi|313678750|ref|YP_004056490.1| ISMbov5, transposase 956483000918 potential frameshift: common BLAST hit: gi|313678750|ref|YP_004056490.1| ISMbov5, transposase 956483000919 potential frameshift: common BLAST hit: gi|313678750|ref|YP_004056490.1| ISMbov5, transposase 956483000920 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 956483000921 Integrase core domain; Region: rve; cl01316 956483000922 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 956483000923 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 956483000924 NAD binding site [chemical binding]; other site 956483000925 substrate binding site [chemical binding]; other site 956483000926 catalytic Zn binding site [ion binding]; other site 956483000927 tetramer interface [polypeptide binding]; other site 956483000928 structural Zn binding site [ion binding]; other site 956483000929 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 956483000930 DNA binding site [nucleotide binding] 956483000931 substrate interaction site [chemical binding]; other site 956483000932 potential frameshift: common BLAST hit: gi|148377689|ref|YP_001256565.1| lipoprotein 956483000933 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]; Region: CYK3; COG5279 956483000934 potential frameshift: common BLAST hit: gi|313678806|ref|YP_004056546.1| ISMbov1, transposase 956483000935 Integrase core domain; Region: rve; cl01316 956483000936 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483000937 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000938 Walker A motif; other site 956483000939 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 956483000940 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 956483000941 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 956483000942 active site 956483000943 catalytic site [active] 956483000944 substrate binding site [chemical binding]; other site 956483000945 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 956483000946 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 956483000947 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 956483000948 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 956483000949 Ligand Binding Site [chemical binding]; other site 956483000950 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 956483000951 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 956483000952 motif 1; other site 956483000953 active site 956483000954 motif 2; other site 956483000955 motif 3; other site 956483000956 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 956483000957 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 956483000958 Domain of unknown function DUF31; Region: DUF31; pfam01732 956483000959 acetoin reductase; Validated; Region: PRK08643 956483000960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 956483000961 NAD(P) binding site [chemical binding]; other site 956483000962 active site 956483000963 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 956483000964 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483000965 potential frameshift: common BLAST hit: gi|313678587|ref|YP_004056327.1| membrane protein 956483000966 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483000967 ATP binding site [chemical binding]; other site 956483000968 Walker B motif; other site 956483000969 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 956483000970 ssDNA binding site [nucleotide binding]; other site 956483000971 dimer interface [polypeptide binding]; other site 956483000972 tetramer (dimer of dimers) interface [polypeptide binding]; other site 956483000973 potential frameshift: common BLAST hit: gi|313678576|ref|YP_004056316.1| TraE family protein 956483000974 AAA-like domain; Region: AAA_10; pfam12846 956483000975 Uncharacterised protein family (UPF0236); Region: UPF0236; pfam06782 956483000976 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 956483000977 domain; Region: GreA_GreB_N; pfam03449 956483000978 C-term; Region: GreA_GreB; pfam01272 956483000979 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 956483000980 GTP-binding protein YchF; Reviewed; Region: PRK09601 956483000981 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 956483000982 G1 box; other site 956483000983 GTP/Mg2+ binding site [chemical binding]; other site 956483000984 Switch I region; other site 956483000985 G2 box; other site 956483000986 Switch II region; other site 956483000987 G3 box; other site 956483000988 G4 box; other site 956483000989 G5 box; other site 956483000990 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 956483000991 Protein of unknown function DUF45; Region: DUF45; cl00636 956483000992 Nuclease-related domain; Region: NERD; pfam08378 956483000993 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 956483000994 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 956483000995 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 956483000996 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 956483000997 excinuclease ABC subunit B; Provisional; Region: PRK05298 956483000998 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 956483000999 ATP binding site [chemical binding]; other site 956483001000 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 956483001001 nucleotide binding region [chemical binding]; other site 956483001002 ATP-binding site [chemical binding]; other site 956483001003 Ultra-violet resistance protein B; Region: UvrB; pfam12344 956483001004 UvrB/uvrC motif; Region: UVR; pfam02151 956483001005 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 956483001006 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 956483001007 cofactor binding site; other site 956483001008 DNA binding site [nucleotide binding] 956483001009 substrate interaction site [chemical binding]; other site 956483001010 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 956483001011 Cation transport protein; Region: TrkH; cl10514 956483001012 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 956483001013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 956483001014 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 956483001015 cell division protein MraZ; Reviewed; Region: PRK00326 956483001016 MraZ protein; Region: MraZ; pfam02381 956483001017 MraZ protein; Region: MraZ; pfam02381 956483001018 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 956483001019 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 956483001020 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum...; Region: FtsZ_type1; cd02201 956483001021 nucleotide binding site [chemical binding]; other site 956483001022 SulA interaction site; other site 956483001023 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 956483001024 lipoyl-biotinyl attachment site [posttranslational modification]; other site 956483001025 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 956483001026 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 956483001027 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 956483001028 active site 956483001029 Zn binding site [ion binding]; other site 956483001030 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 956483001031 dimer interface [polypeptide binding]; other site 956483001032 ssDNA binding site [nucleotide binding]; other site 956483001033 tetramer (dimer of dimers) interface [polypeptide binding]; other site 956483001034 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 956483001035 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 956483001036 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 956483001037 HIGH motif; other site 956483001038 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 956483001039 active site 956483001040 KMSKS motif; other site 956483001041 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 956483001042 tRNA binding surface [nucleotide binding]; other site 956483001043 anticodon binding site; other site 956483001044 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 956483001045 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 956483001046 Walker A motif; other site 956483001047 ATP binding site [chemical binding]; other site 956483001048 Walker B motif; other site 956483001049 arginine finger; other site 956483001050 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 956483001051 Domain of unknown function (DUF205); Region: DUF205; cl00410 956483001052 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 956483001053 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 956483001054 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 956483001055 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 956483001056 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 956483001057 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 956483001058 alpha subunit interaction interface [polypeptide binding]; other site 956483001059 Walker A motif; other site 956483001060 ATP binding site [chemical binding]; other site 956483001061 Walker B motif; other site 956483001062 inhibitor binding site; inhibition site 956483001063 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 956483001064 ATP synthase; Region: ATP-synt; cl00365 956483001065 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 956483001066 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 956483001067 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 956483001068 beta subunit interaction interface [polypeptide binding]; other site 956483001069 Walker A motif; other site 956483001070 ATP binding site [chemical binding]; other site 956483001071 Walker B motif; other site 956483001072 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 956483001073 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 956483001074 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 956483001075 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 956483001076 ATP synthase subunit C; Region: ATP-synt_C; cl00466 956483001077 ATP synthase A chain; Region: ATP-synt_A; cl00413 956483001078 potential frameshift: common BLAST hit: gi|313678806|ref|YP_004056546.1| ISMbov1, transposase 956483001079 Integrase core domain; Region: rve; cl01316 956483001080 Mycoplasma P30 protein; Region: P30; pfam07390 956483001081 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 956483001082 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 956483001083 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 956483001084 active site 956483001085 dimer interface [polypeptide binding]; other site 956483001086 motif 1; other site 956483001087 motif 2; other site 956483001088 motif 3; other site 956483001089 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 956483001090 anticodon binding site; other site 956483001091 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 956483001092 active site 956483001093 HIGH motif; other site 956483001094 dimer interface [polypeptide binding]; other site 956483001095 KMSKS motif; other site 956483001096 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 956483001097 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 956483001098 Transposase [DNA replication, recombination, and repair]; Region: COG5421 956483001099 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 956483001100 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483001101 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483001102 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483001103 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483001104 Domain of unknown function DUF31; Region: DUF31; pfam01732 956483001105 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 956483001106 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 956483001107 Active site serine [active] 956483001108 seryl-tRNA synthetase; Region: serS; TIGR00414 956483001109 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483001110 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483001111 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 956483001112 active site turn [active] 956483001113 phosphorylation site [posttranslational modification] 956483001114 UGMP family protein; Validated; Region: PRK09604 956483001115 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 956483001116 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 956483001117 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 956483001118 elongation factor Tu; Reviewed; Region: PRK12736 956483001119 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 956483001120 G1 box; other site 956483001121 GEF interaction site [polypeptide binding]; other site 956483001122 GTP/Mg2+ binding site [chemical binding]; other site 956483001123 Switch I region; other site 956483001124 G2 box; other site 956483001125 G3 box; other site 956483001126 Switch II region; other site 956483001127 G4 box; other site 956483001128 G5 box; other site 956483001129 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 956483001130 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 956483001131 Antibiotic Binding Site [chemical binding]; other site 956483001132 enolase; Provisional; Region: eno; PRK00077 956483001133 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 956483001134 dimer interface [polypeptide binding]; other site 956483001135 metal binding site [ion binding]; metal-binding site 956483001136 substrate binding pocket [chemical binding]; other site 956483001137 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 956483001138 RNA binding site [nucleotide binding]; other site 956483001139 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 956483001140 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 956483001141 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 956483001142 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 956483001143 active site 956483001144 dimer interface [polypeptide binding]; other site 956483001145 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 956483001146 dimer interface [polypeptide binding]; other site 956483001147 active site 956483001148 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 956483001149 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 956483001150 DNA binding site [nucleotide binding] 956483001151 catalytic residue [active] 956483001152 H2TH interface [polypeptide binding]; other site 956483001153 putative catalytic residues [active] 956483001154 turnover-facilitating residue; other site 956483001155 intercalation triad [nucleotide binding]; other site 956483001156 8OG recognition residue [nucleotide binding]; other site 956483001157 putative reading head residues; other site 956483001158 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 956483001159 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 956483001160 Smr domain; Region: Smr; cl02619 956483001161 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 956483001162 SelR domain; Region: SelR; cl00369 956483001163 Domain of unknown function DUF31; Region: DUF31; pfam01732 956483001164 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 956483001165 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 956483001166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483001167 Walker A/P-loop; other site 956483001168 ATP binding site [chemical binding]; other site 956483001169 Q-loop/lid; other site 956483001170 ABC transporter signature motif; other site 956483001171 Walker B; other site 956483001172 D-loop; other site 956483001173 H-loop/switch region; other site 956483001174 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 956483001175 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 956483001176 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483001177 Walker A/P-loop; other site 956483001178 ATP binding site [chemical binding]; other site 956483001179 Q-loop/lid; other site 956483001180 ABC transporter signature motif; other site 956483001181 Walker B; other site 956483001182 D-loop; other site 956483001183 H-loop/switch region; other site 956483001184 elongation factor P; Validated; Region: PRK00529 956483001185 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 956483001186 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 956483001187 RNA binding site [nucleotide binding]; other site 956483001188 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 956483001189 RNA binding site [nucleotide binding]; other site 956483001190 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 956483001191 MgtE intracellular N domain; Region: MgtE_N; cl15244 956483001192 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 956483001193 Divalent cation transporter; Region: MgtE; cl00786 956483001194 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 956483001195 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 956483001196 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 956483001197 putative dimer interface [polypeptide binding]; other site 956483001198 putative anticodon binding site; other site 956483001199 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 956483001200 motif 1; other site 956483001201 dimer interface [polypeptide binding]; other site 956483001202 active site 956483001203 motif 2; other site 956483001204 motif 3; other site 956483001205 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 956483001206 UvrD/REP helicase; Region: UvrD-helicase; cl14126 956483001207 UvrD/REP helicase; Region: UvrD-helicase; cl14126 956483001208 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 956483001209 potential frameshift: common BLAST hit: gi|313678480|ref|YP_004056220.1| lipoprotein 956483001210 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 956483001211 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 956483001212 alpha subunit interaction interface [polypeptide binding]; other site 956483001213 Walker A motif; other site 956483001214 ATP binding site [chemical binding]; other site 956483001215 Walker B motif; other site 956483001216 inhibitor binding site; inhibition site 956483001217 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 956483001218 F0F1 ATP synthase subunit alpha; Validated; Region: PRK07165 956483001219 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483001220 Walker A motif; other site 956483001221 ATP binding site [chemical binding]; other site 956483001222 Walker B motif; other site 956483001223 Protein of unknown function (DUF2714); Region: DUF2714; pfam10896 956483001224 Mycoplasma virulence signal region (Myco_arth_vir_N); Region: Myco_arth_vir_N; pfam09610 956483001225 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 956483001226 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 956483001227 nucleotide binding pocket [chemical binding]; other site 956483001228 K-X-D-G motif; other site 956483001229 catalytic site [active] 956483001230 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 956483001231 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 956483001232 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 956483001233 Sulfatase; Region: Sulfatase; cl10460 956483001234 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 956483001235 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 956483001236 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483001237 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 956483001238 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 956483001239 cofactor binding site; other site 956483001240 DNA binding site [nucleotide binding] 956483001241 substrate interaction site [chemical binding]; other site 956483001242 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 956483001243 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 956483001244 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 956483001245 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 956483001246 23S rRNA interface [nucleotide binding]; other site 956483001247 L3 interface [polypeptide binding]; other site 956483001248 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 956483001249 Cupin domain; Region: Cupin_2; cl09118 956483001250 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 956483001251 active site 956483001252 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 956483001253 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 956483001254 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 956483001255 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 956483001256 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 956483001257 ABC-2 type transporter; Region: ABC2_membrane; cl11417 956483001258 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 956483001259 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 956483001260 Walker A/P-loop; other site 956483001261 ATP binding site [chemical binding]; other site 956483001262 Q-loop/lid; other site 956483001263 ABC transporter signature motif; other site 956483001264 Walker B; other site 956483001265 D-loop; other site 956483001266 H-loop/switch region; other site 956483001267 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 956483001268 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and deoxyribose-1-...; Region: PGM2; cd05799 956483001269 active site 956483001270 substrate binding site [chemical binding]; other site 956483001271 metal binding site [ion binding]; metal-binding site 956483001272 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; cd00447 956483001273 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 956483001274 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 956483001275 dimerization domain swap beta strand [polypeptide binding]; other site 956483001276 regulatory protein interface [polypeptide binding]; other site 956483001277 active site 956483001278 regulatory phosphorylation site [posttranslational modification]; other site 956483001279 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 956483001280 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 956483001281 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 956483001282 hypothetical protein; Provisional; Region: PRK13671 956483001283 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 956483001284 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 956483001285 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 956483001286 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 956483001287 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 956483001288 23S rRNA binding site [nucleotide binding]; other site 956483001289 L21 binding site [polypeptide binding]; other site 956483001290 L13 binding site [polypeptide binding]; other site 956483001291 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 956483001292 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483001293 Walker A motif; other site 956483001294 ATP binding site [chemical binding]; other site 956483001295 Walker B motif; other site 956483001296 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 956483001297 active site 956483001298 ATP binding site [chemical binding]; other site 956483001299 substrate binding site [chemical binding]; other site 956483001300 GTP-binding protein LepA; Provisional; Region: PRK05433 956483001301 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 956483001302 G1 box; other site 956483001303 putative GEF interaction site [polypeptide binding]; other site 956483001304 GTP/Mg2+ binding site [chemical binding]; other site 956483001305 Switch I region; other site 956483001306 G2 box; other site 956483001307 G3 box; other site 956483001308 Switch II region; other site 956483001309 G4 box; other site 956483001310 G5 box; other site 956483001311 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 956483001312 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 956483001313 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 956483001314 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 956483001315 active site 956483001316 substrate binding site [chemical binding]; other site 956483001317 ATP binding site [chemical binding]; other site 956483001318 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 956483001319 substrate binding site [chemical binding]; other site 956483001320 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH...; Region: NfsA_FRP; cd02146 956483001321 dimer interface [polypeptide binding]; other site 956483001322 FMN binding site [chemical binding]; other site 956483001323 NADPH bind site [chemical binding]; other site 956483001324 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 956483001325 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 956483001326 putative transposase OrfB; Reviewed; Region: PHA02517 956483001327 Transposase [DNA replication, recombination, and repair]; Region: COG5421 956483001328 Integrase core domain; Region: rve; cl01316 956483001329 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 956483001330 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 956483001331 active site 956483001332 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 956483001333 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 956483001334 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 956483001335 active site 956483001336 HIGH motif; other site 956483001337 KMSK motif region; other site 956483001338 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 956483001339 tRNA binding surface [nucleotide binding]; other site 956483001340 anticodon binding site; other site 956483001341 Membrane transport protein; Region: Mem_trans; cl09117 956483001342 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 956483001343 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 956483001344 NAD(P) binding site [chemical binding]; other site 956483001345 LDH/MDH dimer interface [polypeptide binding]; other site 956483001346 substrate binding site [chemical binding]; other site 956483001347 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 956483001348 E3 interaction surface; other site 956483001349 lipoyl attachment site [posttranslational modification]; other site 956483001350 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 956483001351 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 956483001352 Acetokinase family; Region: Acetate_kinase; cl01029 956483001353 hypothetical protein; Provisional; Region: PRK06148 956483001354 Mycoplasma MFS transporter; Region: MFS_Mycoplasma; pfam07672 956483001355 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 956483001356 Integrase core domain; Region: rve; cl01316 956483001357 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 956483001358 endonuclease IV; Provisional; Region: PRK01060 956483001359 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 956483001360 AP (apurinic/apyrimidinic) site pocket; other site 956483001361 DNA interaction; other site 956483001362 Metal-binding active site; metal-binding site 956483001363 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 956483001364 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 956483001365 UvrB/uvrC motif; Region: UVR; pfam02151 956483001366 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 956483001367 Mycoplasma MG185/MG260 protein; Region: Lipoprotein_X; pfam03305 956483001368 Putative mycoplasma lipoprotein, C-terminal region; Region: Lipoprotein_10; pfam03202 956483001369 potential frameshift: common BLAST hit: gi|313678409|ref|YP_004056149.1| lipoprotein, nuclease family 956483001370 Staphylococcal nuclease homologues; Region: SNc; smart00318 956483001371 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 956483001372 Catalytic site; other site 956483001373 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483001374 Walker A/P-loop; other site 956483001375 ATP binding site [chemical binding]; other site 956483001376 Q-loop/lid; other site 956483001377 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 956483001378 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483001379 ABC transporter signature motif; other site 956483001380 Walker B; other site 956483001381 D-loop; other site 956483001382 H-loop/switch region; other site 956483001383 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 956483001384 dimer interface [polypeptide binding]; other site 956483001385 conserved gate region; other site 956483001386 putative PBP binding loops; other site 956483001387 ABC-ATPase subunit interface; other site 956483001388 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 956483001389 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 956483001390 dimer interface [polypeptide binding]; other site 956483001391 conserved gate region; other site 956483001392 putative PBP binding loops; other site 956483001393 ABC-ATPase subunit interface; other site 956483001394 GTPase CgtA; Reviewed; Region: obgE; PRK12297 956483001395 GTP1/OBG; Region: GTP1_OBG; pfam01018 956483001396 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 956483001397 G1 box; other site 956483001398 GTP/Mg2+ binding site [chemical binding]; other site 956483001399 Switch I region; other site 956483001400 G2 box; other site 956483001401 G3 box; other site 956483001402 Switch II region; other site 956483001403 G4 box; other site 956483001404 G5 box; other site 956483001405 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 956483001406 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 956483001407 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 956483001408 active site 956483001409 motif I; other site 956483001410 motif II; other site 956483001411 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 956483001412 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 956483001413 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 956483001414 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 956483001415 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 956483001416 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 956483001417 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 956483001418 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 956483001419 intersubunit interface [polypeptide binding]; other site 956483001420 active site 956483001421 catalytic residue [active] 956483001422 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 956483001423 substrate binding site [chemical binding]; other site 956483001424 dimer interface [polypeptide binding]; other site 956483001425 catalytic triad [active] 956483001426 Cobalt transport protein; Region: CbiQ; cl00463 956483001427 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13651 956483001428 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 956483001429 Walker A/P-loop; other site 956483001430 ATP binding site [chemical binding]; other site 956483001431 Q-loop/lid; other site 956483001432 ABC transporter signature motif; other site 956483001433 Walker B; other site 956483001434 D-loop; other site 956483001435 H-loop/switch region; other site 956483001436 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 956483001437 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13632 956483001438 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 956483001439 Walker A/P-loop; other site 956483001440 ATP binding site [chemical binding]; other site 956483001441 Q-loop/lid; other site 956483001442 ABC transporter signature motif; other site 956483001443 Walker B; other site 956483001444 D-loop; other site 956483001445 H-loop/switch region; other site 956483001446 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 956483001447 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 956483001448 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 956483001449 alphaNTD - beta interaction site [polypeptide binding]; other site 956483001450 alphaNTD homodimer interface [polypeptide binding]; other site 956483001451 alphaNTD - beta' interaction site [polypeptide binding]; other site 956483001452 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 956483001453 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 956483001454 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 956483001455 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 956483001456 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 956483001457 rRNA binding site [nucleotide binding]; other site 956483001458 predicted 30S ribosome binding site; other site 956483001459 methionine aminopeptidase; Reviewed; Region: PRK07281 956483001460 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 956483001461 active site 956483001462 adenylate kinases; Region: adk; TIGR01351 956483001463 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 956483001464 AMP-binding site [chemical binding]; other site 956483001465 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 956483001466 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 956483001467 SecY translocase; Region: SecY; pfam00344 956483001468 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 956483001469 catalytic core [active] 956483001470 putative transposase OrfB; Reviewed; Region: PHA02517 956483001471 Integrase core domain; Region: rve; cl01316 956483001472 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 956483001473 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 956483001474 active site 956483001475 motif I; other site 956483001476 motif II; other site 956483001477 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 956483001478 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 956483001479 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 956483001480 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 956483001481 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 956483001482 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 956483001483 5S rRNA interface [nucleotide binding]; other site 956483001484 L27 interface [polypeptide binding]; other site 956483001485 23S rRNA interface [nucleotide binding]; other site 956483001486 L5 interface [polypeptide binding]; other site 956483001487 ribosomal protein L6, bacterial type; Region: L6_bact; TIGR03654 956483001488 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 956483001489 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 956483001490 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 956483001491 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 956483001492 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 956483001493 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 956483001494 KOW motif; Region: KOW; cl00354 956483001495 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 956483001496 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 956483001497 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 956483001498 23S rRNA interface [nucleotide binding]; other site 956483001499 putative translocon interaction site; other site 956483001500 signal recognition particle (SRP54) interaction site; other site 956483001501 L23 interface [polypeptide binding]; other site 956483001502 trigger factor interaction site; other site 956483001503 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 956483001504 23S rRNA interface [nucleotide binding]; other site 956483001505 5S rRNA interface [nucleotide binding]; other site 956483001506 putative antibiotic binding site [chemical binding]; other site 956483001507 L25 interface [polypeptide binding]; other site 956483001508 L27 interface [polypeptide binding]; other site 956483001509 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 956483001510 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 956483001511 G-X-X-G motif; other site 956483001512 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 956483001513 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 956483001514 putative translocon binding site; other site 956483001515 protein-rRNA interface [nucleotide binding]; other site 956483001516 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 956483001517 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 956483001518 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 956483001519 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 956483001520 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 956483001521 potential frameshift: common BLAST hit: gi|313678366|ref|YP_004056106.1| ribosomal protein, L4/L1 family 956483001522 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 956483001523 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 956483001524 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 956483001525 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 956483001526 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 956483001527 IHF dimer interface [polypeptide binding]; other site 956483001528 IHF - DNA interface [nucleotide binding]; other site 956483001529 Recombination protein U; Region: RecU; cl01314 956483001530 recombinase A; Provisional; Region: recA; PRK09354 956483001531 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 956483001532 hexamer interface [polypeptide binding]; other site 956483001533 Walker A motif; other site 956483001534 ATP binding site [chemical binding]; other site 956483001535 Walker B motif; other site 956483001536 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 956483001537 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 956483001538 putative active site [active] 956483001539 metal binding site [ion binding]; metal-binding site 956483001540 homodimer binding site [polypeptide binding]; other site 956483001541 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 956483001542 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 956483001543 oligomer interface [polypeptide binding]; other site 956483001544 active site 956483001545 metal binding site [ion binding]; metal-binding site 956483001546 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 956483001547 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 956483001548 active site 956483001549 uracil binding [chemical binding]; other site 956483001550 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 956483001551 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 956483001552 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 956483001553 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 956483001554 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 956483001555 dimer interface [polypeptide binding]; other site 956483001556 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 956483001557 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 956483001558 HrcA protein C terminal domain; Region: HrcA; pfam01628 956483001559 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 956483001560 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 956483001561 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 956483001562 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 956483001563 RNA binding surface [nucleotide binding]; other site 956483001564 DNA gyrase subunit A; Validated; Region: PRK05560 956483001565 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 956483001566 CAP-like domain; other site 956483001567 Active site [active] 956483001568 primary dimer interface [polypeptide binding]; other site 956483001569 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 956483001570 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 956483001571 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 956483001572 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 956483001573 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 956483001574 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 956483001575 DNA helicase, putative; Region: TIGR00376 956483001576 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 956483001577 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 956483001578 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 956483001579 putative active site [active] 956483001580 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 956483001581 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 956483001582 Int/Topo IB signature motif; other site 956483001583 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 956483001584 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 956483001585 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 956483001586 ATP binding site [chemical binding]; other site 956483001587 putative Mg++ binding site [ion binding]; other site 956483001588 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 956483001589 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 956483001590 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 956483001591 HsdM N-terminal domain; Region: HsdM_N; pfam12161 956483001592 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 956483001593 chromosome segregation protein; Provisional; Region: PRK03918 956483001594 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 956483001595 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 956483001596 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 956483001597 Active site serine [active] 956483001598 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 956483001599 Active site serine [active] 956483001600 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 956483001601 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 956483001602 HIGH motif; other site 956483001603 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 956483001604 active site 956483001605 KMSKS motif; other site 956483001606 S-adenosylmethionine synthetase; Validated; Region: PRK05250 956483001607 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 956483001608 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 956483001609 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 956483001610 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 956483001611 signal recognition particle protein; Provisional; Region: PRK10867 956483001612 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 956483001613 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 956483001614 P loop; other site 956483001615 GTP binding site [chemical binding]; other site 956483001616 Signal peptide binding domain; Region: SRP_SPB; pfam02978 956483001617 Predicted acetyltransferase [General function prediction only]; Region: COG3393 956483001618 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 956483001619 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 956483001620 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 956483001621 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 956483001622 active site 956483001623 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 956483001624 substrate binding site [chemical binding]; other site 956483001625 hinge regions; other site 956483001626 ADP binding site [chemical binding]; other site 956483001627 catalytic site [active] 956483001628 potential frameshift: common BLAST hit: gi|313678322|ref|YP_004056062.1| peptidase, M17 family 956483001629 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; cl08294 956483001630 interface (dimer of trimers) [polypeptide binding]; other site 956483001631 Substrate-binding/catalytic site; other site 956483001632 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; cl08294 956483001633 Substrate-binding/catalytic site; other site 956483001634 Zn-binding sites [ion binding]; other site 956483001635 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 956483001636 putative active site [active] 956483001637 putative catalytic site [active] 956483001638 putative Mg binding site IVb [ion binding]; other site 956483001639 putative phosphate binding site [ion binding]; other site 956483001640 putative DNA binding site [nucleotide binding]; other site 956483001641 putative Mg binding site IVa [ion binding]; other site 956483001642 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 956483001643 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 956483001644 putative active site [active] 956483001645 putative metal binding site [ion binding]; other site 956483001646 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 956483001647 elongation factor G; Reviewed; Region: PRK12739 956483001648 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 956483001649 G1 box; other site 956483001650 putative GEF interaction site [polypeptide binding]; other site 956483001651 GTP/Mg2+ binding site [chemical binding]; other site 956483001652 Switch I region; other site 956483001653 G2 box; other site 956483001654 G3 box; other site 956483001655 Switch II region; other site 956483001656 G4 box; other site 956483001657 G5 box; other site 956483001658 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 956483001659 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 956483001660 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 956483001661 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 956483001662 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 956483001663 S17 interaction site [polypeptide binding]; other site 956483001664 S8 interaction site; other site 956483001665 16S rRNA interaction site [nucleotide binding]; other site 956483001666 streptomycin interaction site [chemical binding]; other site 956483001667 23S rRNA interaction site [nucleotide binding]; other site 956483001668 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 956483001669 trigger factor; Region: tig; TIGR00115 956483001670 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 956483001671 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 956483001672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483001673 Walker A/P-loop; other site 956483001674 ATP binding site [chemical binding]; other site 956483001675 Q-loop/lid; other site 956483001676 ABC transporter signature motif; other site 956483001677 Walker B; other site 956483001678 D-loop; other site 956483001679 H-loop/switch region; other site 956483001680 ABC transporter; Region: ABC_tran_2; pfam12848 956483001681 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 956483001682 potential frameshift: common BLAST hit: gi|313678750|ref|YP_004056490.1| ISMbov5, transposase 956483001683 potential frameshift: common BLAST hit: gi|313678750|ref|YP_004056490.1| ISMbov5, transposase 956483001684 potential frameshift: common BLAST hit: gi|313678750|ref|YP_004056490.1| ISMbov5, transposase 956483001685 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 956483001686 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 956483001687 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 956483001688 Walker A/P-loop; other site 956483001689 ATP binding site [chemical binding]; other site 956483001690 Q-loop/lid; other site 956483001691 ABC transporter signature motif; other site 956483001692 Walker B; other site 956483001693 D-loop; other site 956483001694 H-loop/switch region; other site 956483001695 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 956483001696 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 956483001697 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483001698 Walker A/P-loop; other site 956483001699 ATP binding site [chemical binding]; other site 956483001700 Q-loop/lid; other site 956483001701 ABC transporter signature motif; other site 956483001702 Walker B; other site 956483001703 D-loop; other site 956483001704 H-loop/switch region; other site 956483001705 Uncharacterised protein family (UPF0154); Region: UPF0154; cl01536 956483001706 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 956483001707 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 956483001708 oligomer interface [polypeptide binding]; other site 956483001709 active site 956483001710 metal binding site [ion binding]; metal-binding site 956483001711 putative transposase OrfB; Reviewed; Region: PHA02517 956483001712 Integrase core domain; Region: rve; cl01316 956483001713 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 956483001714 RNA polymerase beta' subunit; Region: rpoC1; CHL00018 956483001715 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 956483001716 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 956483001717 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 956483001718 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 956483001719 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 956483001720 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 956483001721 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 956483001722 DNA binding site [nucleotide binding] 956483001723 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 956483001724 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 956483001725 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 956483001726 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 956483001727 RPB1 interaction site [polypeptide binding]; other site 956483001728 RPB10 interaction site [polypeptide binding]; other site 956483001729 RPB11 interaction site [polypeptide binding]; other site 956483001730 RPB3 interaction site [polypeptide binding]; other site 956483001731 RPB12 interaction site [polypeptide binding]; other site 956483001732 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 956483001733 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 956483001734 core dimer interface [polypeptide binding]; other site 956483001735 peripheral dimer interface [polypeptide binding]; other site 956483001736 L10 interface [polypeptide binding]; other site 956483001737 L11 interface [polypeptide binding]; other site 956483001738 putative EF-Tu interaction site [polypeptide binding]; other site 956483001739 putative EF-G interaction site [polypeptide binding]; other site 956483001740 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 956483001741 23S rRNA interface [nucleotide binding]; other site 956483001742 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 956483001743 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 956483001744 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 956483001745 dimer interface [polypeptide binding]; other site 956483001746 putative anticodon binding site; other site 956483001747 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 956483001748 motif 1; other site 956483001749 active site 956483001750 motif 2; other site 956483001751 motif 3; other site 956483001752 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 956483001753 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 956483001754 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 956483001755 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 956483001756 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 956483001757 RNA binding site [nucleotide binding]; other site 956483001758 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 956483001759 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 956483001760 Walker A motif; other site 956483001761 ATP binding site [chemical binding]; other site 956483001762 Walker B motif; other site 956483001763 arginine finger; other site 956483001764 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 956483001765 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 956483001766 Walker A motif; other site 956483001767 ATP binding site [chemical binding]; other site 956483001768 Walker B motif; other site 956483001769 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 956483001770 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 956483001771 putative transposase OrfB; Reviewed; Region: PHA02517 956483001772 Integrase core domain; Region: rve; cl01316 956483001773 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 956483001774 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 956483001775 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 956483001776 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 956483001777 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 956483001778 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 956483001779 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 956483001780 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 956483001781 putative active site [active] 956483001782 substrate binding site [chemical binding]; other site 956483001783 putative cosubstrate binding site; other site 956483001784 catalytic site [active] 956483001785 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cl14785 956483001786 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2)...; Region: phosphohexomutase; cl03757 956483001787 metal binding site [ion binding]; metal-binding site 956483001788 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 956483001789 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 956483001790 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 956483001791 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 956483001792 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 956483001793 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 956483001794 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 956483001795 putative active site [active] 956483001796 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 956483001797 intersubunit interface [polypeptide binding]; other site 956483001798 active site 956483001799 Zn2+ binding site [ion binding]; other site 956483001800 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 956483001801 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 956483001802 AP (apurinic/apyrimidinic) site pocket; other site 956483001803 DNA interaction; other site 956483001804 Metal-binding active site; metal-binding site 956483001805 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 956483001806 active site 956483001807 dimer interface [polypeptide binding]; other site 956483001808 magnesium binding site [ion binding]; other site 956483001809 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 956483001810 active site 956483001811 phosphorylation site [posttranslational modification] 956483001812 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 956483001813 P-loop; other site 956483001814 active site 956483001815 phosphorylation site [posttranslational modification] 956483001816 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 956483001817 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: Php; COG1735 956483001818 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 956483001819 active site 956483001820 substrate binding pocket [chemical binding]; other site 956483001821 homodimer interaction site [polypeptide binding]; other site 956483001822 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 956483001823 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 956483001824 active site 956483001825 motif I; other site 956483001826 motif II; other site 956483001827 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 956483001828 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 956483001829 cofactor binding site; other site 956483001830 DNA binding site [nucleotide binding] 956483001831 substrate interaction site [chemical binding]; other site 956483001832 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 956483001833 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 956483001834 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483001835 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483001836 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 956483001837 Fic family protein [Function unknown]; Region: COG3177 956483001838 Fic/DOC family; Region: Fic; cl00960 956483001839 potential frameshift: common BLAST hit: gi|15828868|ref|NP_326228.1| type III restriction-modification system: methylase 956483001840 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 956483001841 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 956483001842 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 956483001843 potential frameshift: common BLAST hit: gi|313678679|ref|YP_004056419.1| ISMbov7, transposase 956483001844 potential frameshift: common BLAST hit: gi|313678679|ref|YP_004056419.1| ISMbov7, transposase 956483001845 Integrase core domain; Region: rve; cl01316 956483001846 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 956483001847 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 956483001848 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 956483001849 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 956483001850 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483001851 Walker A/P-loop; other site 956483001852 ATP binding site [chemical binding]; other site 956483001853 Q-loop/lid; other site 956483001854 ABC transporter signature motif; other site 956483001855 Walker B; other site 956483001856 D-loop; other site 956483001857 H-loop/switch region; other site 956483001858 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 956483001859 active site 956483001860 Domain of unknown function DUF28; Region: DUF28; cl00361 956483001861 NAD synthase; Region: NAD_synthase; pfam02540 956483001862 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 956483001863 homodimer interface [polypeptide binding]; other site 956483001864 NAD binding pocket [chemical binding]; other site 956483001865 ATP binding pocket [chemical binding]; other site 956483001866 Mg binding site [ion binding]; other site 956483001867 active-site loop [active] 956483001868 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 956483001869 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 956483001870 TRAM domain; Region: TRAM; cl01282 956483001871 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 956483001872 S-adenosylmethionine binding site [chemical binding]; other site 956483001873 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 956483001874 Walker A motif; other site 956483001875 ATP binding site [chemical binding]; other site 956483001876 Walker B motif; other site 956483001877 arginine finger; other site 956483001878 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 956483001879 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 956483001880 CoA-binding site [chemical binding]; other site 956483001881 ATP-binding [chemical binding]; other site 956483001882 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 956483001883 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 956483001884 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 956483001885 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; cl11420 956483001886 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 956483001887 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 956483001888 RNA/DNA hybrid binding site [nucleotide binding]; other site 956483001889 active site 956483001890 K+ potassium transporter; Region: K_trans; cl01227 956483001891 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 956483001892 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 956483001893 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 956483001894 RNA binding surface [nucleotide binding]; other site 956483001895 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 956483001896 active site 956483001897 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 956483001898 Chromate transporter; Region: Chromate_transp; pfam02417 956483001899 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 956483001900 S-adenosylmethionine binding site [chemical binding]; other site 956483001901 Protein of unknown function (DUF402); Region: DUF402; cl00979 956483001902 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 956483001903 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 956483001904 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 956483001905 DNA polymerase III subunit delta'; Validated; Region: PRK07132 956483001906 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 956483001907 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 956483001908 thymidylate kinase; Validated; Region: tmk; PRK00698 956483001909 TMP-binding site; other site 956483001910 ATP-binding site [chemical binding]; other site 956483001911 recombination protein RecR; Reviewed; Region: recR; PRK00076 956483001912 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 956483001913 active site 956483001914 metal binding site [ion binding]; metal-binding site 956483001915 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 956483001916 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 956483001917 Walker A motif; other site 956483001918 ATP binding site [chemical binding]; other site 956483001919 Walker B motif; other site 956483001920 arginine finger; other site 956483001921 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 956483001922 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07133 956483001923 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 956483001924 Sulfatase; Region: Sulfatase; cl10460 956483001925 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 956483001926 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 956483001927 active site 956483001928 motif I; other site 956483001929 motif II; other site 956483001930 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 956483001931 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 956483001932 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 956483001933 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 956483001934 translation initiation factor IF-2; Region: IF-2; TIGR00487 956483001935 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 956483001936 G1 box; other site 956483001937 putative GEF interaction site [polypeptide binding]; other site 956483001938 GTP/Mg2+ binding site [chemical binding]; other site 956483001939 Switch I region; other site 956483001940 G2 box; other site 956483001941 G3 box; other site 956483001942 Switch II region; other site 956483001943 G4 box; other site 956483001944 G5 box; other site 956483001945 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 956483001946 Translation-initiation factor 2; Region: IF-2; pfam11987 956483001947 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 956483001948 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 956483001949 putative RNA binding cleft [nucleotide binding]; other site 956483001950 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 956483001951 NusA N-terminal domain; Region: NusA_N; pfam08529 956483001952 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 956483001953 G-X-X-G motif; other site 956483001954 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 956483001955 Thymidine kinase; Region: TK; cl00631 956483001956 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 956483001957 interface (dimer of trimers) [polypeptide binding]; other site 956483001958 Substrate-binding/catalytic site; other site 956483001959 Zn-binding sites [ion binding]; other site 956483001960 potential frameshift: common BLAST hit: gi|313678806|ref|YP_004056546.1| ISMbov1, transposase 956483001961 Integrase core domain; Region: rve; cl01316 956483001962 hypothetical protein; Provisional; Region: PRK09609 956483001963 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 956483001964 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cd00397 956483001965 Int/Topo IB signature motif; other site 956483001966 active site 956483001967 DNA binding site [nucleotide binding] 956483001968 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 956483001969 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 956483001970 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 956483001971 mycoides cluster lipoprotein, LppA/P72 family; Region: Mycoplas_LppA; TIGR03490 956483001972 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 956483001973 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 956483001974 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 956483001975 GatB domain; Region: GatB_Yqey; cl11497 956483001976 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 956483001977 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 956483001978 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 956483001979 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 956483001980 RNA binding surface [nucleotide binding]; other site 956483001981 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 956483001982 active site 956483001983 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 956483001984 ScpA/B protein; Region: ScpA_ScpB; cl00598 956483001985 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 956483001986 putative acyl-acceptor binding pocket; other site 956483001987 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 956483001988 GTP-binding protein Der; Reviewed; Region: PRK00093 956483001989 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 956483001990 G1 box; other site 956483001991 GTP/Mg2+ binding site [chemical binding]; other site 956483001992 Switch I region; other site 956483001993 G2 box; other site 956483001994 Switch II region; other site 956483001995 G3 box; other site 956483001996 G4 box; other site 956483001997 G5 box; other site 956483001998 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 956483001999 G1 box; other site 956483002000 GTP/Mg2+ binding site [chemical binding]; other site 956483002001 Switch I region; other site 956483002002 G2 box; other site 956483002003 G3 box; other site 956483002004 Switch II region; other site 956483002005 G4 box; other site 956483002006 G5 box; other site 956483002007 cytidylate kinase; Provisional; Region: cmk; PRK00023 956483002008 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 956483002009 CMP-binding site; other site 956483002010 The sites determining sugar specificity; other site 956483002011 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 956483002012 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 956483002013 HSP70 interaction site [polypeptide binding]; other site 956483002014 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 956483002015 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 956483002016 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 956483002017 Ribosome-binding factor A; Region: RBFA; cl00542 956483002018 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 956483002019 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 956483002020 active site 956483002021 HIGH motif; other site 956483002022 dimer interface [polypeptide binding]; other site 956483002023 KMSKS motif; other site 956483002024 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 956483002025 putative tRNA-binding site [nucleotide binding]; other site 956483002026 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 956483002027 Phosphopantetheine attachment site; Region: PP-binding; cl09936 956483002028 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 956483002029 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 956483002030 S-adenosylmethionine binding site [chemical binding]; other site 956483002031 peptide chain release factor 1; Validated; Region: prfA; PRK00591 956483002032 RF-1 domain; Region: RF-1; cl02875 956483002033 RF-1 domain; Region: RF-1; cl02875 956483002034 Fic/DOC family; Region: Fic; cl00960 956483002035 Uncharacterized conserved protein [Function unknown]; Region: COG1284 956483002036 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 956483002037 potential frameshift: common BLAST hit: gi|313678171|ref|YP_004055911.1| ISMbov1, transposase 956483002038 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 956483002039 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 956483002040 ATP binding site [chemical binding]; other site 956483002041 Mg2+ binding site [ion binding]; other site 956483002042 G-X-G motif; other site 956483002043 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 956483002044 anchoring element; other site 956483002045 dimer interface [polypeptide binding]; other site 956483002046 ATP binding site [chemical binding]; other site 956483002047 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 956483002048 active site 956483002049 putative metal-binding site [ion binding]; other site 956483002050 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 956483002051 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 956483002052 catalytic residues [active] 956483002053 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 956483002054 SmpB-tmRNA interface; other site 956483002055 Integrase core domain; Region: rve; cl01316 956483002056 Transposase [DNA replication, recombination, and repair]; Region: COG5421 956483002057 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 956483002058 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 956483002059 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 956483002060 DNA binding site [nucleotide binding] 956483002061 domain linker motif; other site 956483002062 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 956483002063 putative transposase OrfB; Reviewed; Region: PHA02517 956483002064 Integrase core domain; Region: rve; cl01316 956483002065 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 956483002066 magnesium-transporting ATPase; Provisional; Region: PRK15122 956483002067 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 956483002068 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 956483002069 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 956483002070 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 956483002071 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 956483002072 Walker A/P-loop; other site 956483002073 ATP binding site [chemical binding]; other site 956483002074 Q-loop/lid; other site 956483002075 ABC transporter signature motif; other site 956483002076 Walker B; other site 956483002077 D-loop; other site 956483002078 H-loop/switch region; other site 956483002079 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 956483002080 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 956483002081 Walker A motif; other site 956483002082 ATP binding site [chemical binding]; other site 956483002083 Walker B motif; other site 956483002084 arginine finger; other site 956483002085 Peptidase family M41; Region: Peptidase_M41; pfam01434 956483002086 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 956483002087 Ligand Binding Site [chemical binding]; other site 956483002088 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 956483002089 putative active site [active] 956483002090 catalytic residue [active] 956483002091 RecD/TraA family; Region: recD_rel; TIGR01448 956483002092 UvrD/REP helicase; Region: UvrD-helicase; cl14126