-- dump date 20140619_224316 -- class Genbank::misc_feature -- table misc_feature_note -- id note 262768000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 262768000002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768000003 Walker A motif; other site 262768000004 ATP binding site [chemical binding]; other site 262768000005 Walker B motif; other site 262768000006 arginine finger; other site 262768000007 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 262768000008 DnaA box-binding interface [nucleotide binding]; other site 262768000009 DNA polymerase III subunit beta; Provisional; Region: PRK14944 262768000010 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 262768000011 putative DNA binding surface [nucleotide binding]; other site 262768000012 dimer interface [polypeptide binding]; other site 262768000013 beta-clamp/clamp loader binding surface; other site 262768000014 beta-clamp/translesion DNA polymerase binding surface; other site 262768000015 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 262768000016 active site 262768000017 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 262768000018 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 262768000019 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 262768000020 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 262768000021 putative ADP-binding pocket [chemical binding]; other site 262768000022 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 262768000023 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768000024 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 262768000025 dimer interface [polypeptide binding]; other site 262768000026 ssDNA binding site [nucleotide binding]; other site 262768000027 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768000028 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 262768000029 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional; Region: PRK14538 262768000030 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 262768000031 DHH family; Region: DHH; pfam01368 262768000032 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 262768000033 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 262768000034 replicative DNA helicase; Region: DnaB; TIGR00665 262768000035 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 262768000036 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 262768000037 Walker A motif; other site 262768000038 ATP binding site [chemical binding]; other site 262768000039 Walker B motif; other site 262768000040 DNA binding loops [nucleotide binding] 262768000041 peptide chain release factor 1; Region: prfA; TIGR00019 262768000042 PCRF domain; Region: PCRF; pfam03462 262768000043 RF-1 domain; Region: RF-1; pfam00472 262768000044 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 262768000045 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 262768000046 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 262768000047 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 262768000048 G1 box; other site 262768000049 GTP/Mg2+ binding site [chemical binding]; other site 262768000050 Switch I region; other site 262768000051 G2 box; other site 262768000052 G3 box; other site 262768000053 Switch II region; other site 262768000054 G4 box; other site 262768000055 G5 box; other site 262768000056 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 262768000057 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 262768000058 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 262768000059 active site 262768000060 KMSKS motif; other site 262768000061 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 262768000062 tRNA binding surface [nucleotide binding]; other site 262768000063 anticodon binding site; other site 262768000064 hypothetical protein; Provisional; Region: PRK13661 262768000065 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 262768000066 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 262768000067 Walker A/P-loop; other site 262768000068 ATP binding site [chemical binding]; other site 262768000069 Q-loop/lid; other site 262768000070 ABC transporter signature motif; other site 262768000071 Walker B; other site 262768000072 D-loop; other site 262768000073 H-loop/switch region; other site 262768000074 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 262768000075 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 262768000076 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 262768000077 Walker A/P-loop; other site 262768000078 ATP binding site [chemical binding]; other site 262768000079 Q-loop/lid; other site 262768000080 ABC transporter signature motif; other site 262768000081 Walker B; other site 262768000082 D-loop; other site 262768000083 H-loop/switch region; other site 262768000084 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 262768000085 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768000086 ABC-ATPase subunit interface; other site 262768000087 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 262768000088 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768000089 dimer interface [polypeptide binding]; other site 262768000090 conserved gate region; other site 262768000091 putative PBP binding loops; other site 262768000092 ABC-ATPase subunit interface; other site 262768000093 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 262768000094 metal binding site [ion binding]; metal-binding site 262768000095 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 262768000096 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 262768000097 Walker A/P-loop; other site 262768000098 ATP binding site [chemical binding]; other site 262768000099 Q-loop/lid; other site 262768000100 ABC transporter signature motif; other site 262768000101 Walker B; other site 262768000102 D-loop; other site 262768000103 H-loop/switch region; other site 262768000104 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 262768000105 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 262768000106 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 262768000107 ABC transporter signature motif; other site 262768000108 Walker B; other site 262768000109 D-loop; other site 262768000110 H-loop/switch region; other site 262768000111 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 262768000112 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 262768000113 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 262768000114 putative dimer interface [polypeptide binding]; other site 262768000115 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 262768000116 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 262768000117 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 262768000118 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 262768000119 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 262768000120 motif II; other site 262768000121 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 262768000122 cell division protein; Validated; Region: ftsH; CHL00176 262768000123 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 262768000124 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768000125 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768000126 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 262768000127 dimer interface [polypeptide binding]; other site 262768000128 ssDNA binding site [nucleotide binding]; other site 262768000129 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768000130 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 262768000131 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 262768000132 IHF - DNA interface [nucleotide binding]; other site 262768000133 IHF dimer interface [polypeptide binding]; other site 262768000134 potential frameshift: common BLAST hit: gi|39938879|ref|NP_950645.1| ATP-dependent Zn protease 262768000135 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768000136 Walker A motif; other site 262768000137 ATP binding site [chemical binding]; other site 262768000138 Walker B motif; other site 262768000139 Autophagy protein 16 (ATG16); Region: ATG16; pfam08614 262768000140 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 262768000141 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 262768000142 potential frameshift: common BLAST hit: gi|39938841|ref|NP_950607.1| ATP-dependent DNA helicase 262768000143 AAA domain; Region: AAA_30; pfam13604 262768000144 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 262768000145 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 262768000146 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 262768000147 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 262768000148 Class I ribonucleotide reductase; Region: RNR_I; cd01679 262768000149 active site 262768000150 dimer interface [polypeptide binding]; other site 262768000151 catalytic residues [active] 262768000152 effector binding site; other site 262768000153 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 262768000154 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 262768000155 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 262768000156 dimer interface [polypeptide binding]; other site 262768000157 putative radical transfer pathway; other site 262768000158 diiron center [ion binding]; other site 262768000159 tyrosyl radical; other site 262768000160 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 262768000161 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 262768000162 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 262768000163 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 262768000164 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262768000165 Walker A/P-loop; other site 262768000166 ATP binding site [chemical binding]; other site 262768000167 Q-loop/lid; other site 262768000168 ABC transporter signature motif; other site 262768000169 Walker B; other site 262768000170 D-loop; other site 262768000171 H-loop/switch region; other site 262768000172 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 262768000173 generic binding surface I; other site 262768000174 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 262768000175 IHF dimer interface [polypeptide binding]; other site 262768000176 IHF - DNA interface [nucleotide binding]; other site 262768000177 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768000178 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768000179 Walker A motif; other site 262768000180 ATP binding site [chemical binding]; other site 262768000181 Walker B motif; other site 262768000182 arginine finger; other site 262768000183 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 262768000184 SVM protein signal sequence; Region: SVM_signal; pfam12113 262768000185 SVM protein signal sequence; Region: SVM_signal; pfam12113 262768000186 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 262768000187 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 262768000188 TMP-binding site; other site 262768000189 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768000190 Walker A motif; other site 262768000191 ATP binding site [chemical binding]; other site 262768000192 Walker B motif; other site 262768000193 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 262768000194 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 262768000195 substrate binding pocket [chemical binding]; other site 262768000196 membrane-bound complex binding site; other site 262768000197 hinge residues; other site 262768000198 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768000199 ABC-ATPase subunit interface; other site 262768000200 putative PBP binding loops; other site 262768000201 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 262768000202 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 262768000203 substrate binding pocket [chemical binding]; other site 262768000204 membrane-bound complex binding site; other site 262768000205 hinge residues; other site 262768000206 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768000207 dimer interface [polypeptide binding]; other site 262768000208 conserved gate region; other site 262768000209 putative PBP binding loops; other site 262768000210 ABC-ATPase subunit interface; other site 262768000211 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 262768000212 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262768000213 Q-loop/lid; other site 262768000214 ABC transporter signature motif; other site 262768000215 Walker B; other site 262768000216 D-loop; other site 262768000217 H-loop/switch region; other site 262768000218 Integrase core domain; Region: rve; pfam00665 262768000219 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 262768000220 seryl-tRNA synthetase; Provisional; Region: PRK05431 262768000221 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 262768000222 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 262768000223 dimer interface [polypeptide binding]; other site 262768000224 active site 262768000225 motif 1; other site 262768000226 motif 2; other site 262768000227 motif 3; other site 262768000228 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 262768000229 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 262768000230 active site residue [active] 262768000231 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 262768000232 hypothetical protein; Provisional; Region: PRK14553 262768000233 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 262768000234 GTPase CgtA; Reviewed; Region: obgE; PRK12297 262768000235 GTP1/OBG; Region: GTP1_OBG; pfam01018 262768000236 Obg GTPase; Region: Obg; cd01898 262768000237 G1 box; other site 262768000238 GTP/Mg2+ binding site [chemical binding]; other site 262768000239 Switch I region; other site 262768000240 G2 box; other site 262768000241 G3 box; other site 262768000242 Switch II region; other site 262768000243 G4 box; other site 262768000244 G5 box; other site 262768000245 Obg family GTPase CgtA, C-terminal extension; Region: Obg_CgtA_exten; TIGR03595 262768000246 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 262768000247 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 262768000248 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 262768000249 intersubunit interface [polypeptide binding]; other site 262768000250 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 262768000251 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 262768000252 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 262768000253 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 262768000254 ABC-ATPase subunit interface; other site 262768000255 dimer interface [polypeptide binding]; other site 262768000256 putative PBP binding regions; other site 262768000257 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 262768000258 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 262768000259 ABC-ATPase subunit interface; other site 262768000260 dimer interface [polypeptide binding]; other site 262768000261 putative PBP binding regions; other site 262768000262 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 262768000263 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 262768000264 Walker A/P-loop; other site 262768000265 ATP binding site [chemical binding]; other site 262768000266 Q-loop/lid; other site 262768000267 ABC transporter signature motif; other site 262768000268 Walker B; other site 262768000269 D-loop; other site 262768000270 H-loop/switch region; other site 262768000271 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 262768000272 potential frameshift: common BLAST hit: gi|197294513|ref|YP_001799054.1| Putative ABC-type metal ion transport system periplasmic 262768000273 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 262768000274 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 262768000275 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 262768000276 trimerization site [polypeptide binding]; other site 262768000277 active site 262768000278 HD domain; Region: HD; pfam01966 262768000279 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 262768000280 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 262768000281 active site 262768000282 NTP binding site [chemical binding]; other site 262768000283 metal binding triad [ion binding]; metal-binding site 262768000284 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 262768000285 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 262768000286 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 262768000287 nucleoside/Zn binding site; other site 262768000288 dimer interface [polypeptide binding]; other site 262768000289 catalytic motif [active] 262768000290 thymidine kinase; Provisional; Region: PRK04296 262768000291 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 262768000292 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 262768000293 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768000294 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768000295 Walker A motif; other site 262768000296 ATP binding site [chemical binding]; other site 262768000297 Walker B motif; other site 262768000298 arginine finger; other site 262768000299 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 262768000300 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 262768000301 oligomerisation interface [polypeptide binding]; other site 262768000302 mobile loop; other site 262768000303 roof hairpin; other site 262768000304 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 262768000305 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 262768000306 ring oligomerisation interface [polypeptide binding]; other site 262768000307 ATP/Mg binding site [chemical binding]; other site 262768000308 stacking interactions; other site 262768000309 hinge regions; other site 262768000310 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 262768000311 multimer interface [polypeptide binding]; other site 262768000312 active site 262768000313 catalytic triad [active] 262768000314 protein interface 1 [polypeptide binding]; other site 262768000315 NAD synthetase; Reviewed; Region: nadE; PRK02628 262768000316 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 262768000317 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 262768000318 Ligand Binding Site [chemical binding]; other site 262768000319 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 262768000320 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 262768000321 Zn2+ binding site [ion binding]; other site 262768000322 Mg2+ binding site [ion binding]; other site 262768000323 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 262768000324 synthetase active site [active] 262768000325 NTP binding site [chemical binding]; other site 262768000326 metal binding site [ion binding]; metal-binding site 262768000327 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 262768000328 ACT domain; Region: ACT_4; pfam13291 262768000329 histidyl-tRNA synthetase; Region: hisS; TIGR00442 262768000330 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 262768000331 dimer interface [polypeptide binding]; other site 262768000332 motif 1; other site 262768000333 active site 262768000334 motif 2; other site 262768000335 motif 3; other site 262768000336 HisRS Histidyl-anticodon binding domain. HisRS 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: HisRS_anticodon; cd00859 262768000337 anticodon binding site; other site 262768000338 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 262768000339 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 262768000340 dimer interface [polypeptide binding]; other site 262768000341 anticodon binding site; other site 262768000342 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 262768000343 homodimer interface [polypeptide binding]; other site 262768000344 motif 1; other site 262768000345 active site 262768000346 motif 2; other site 262768000347 GAD domain; Region: GAD; pfam02938 262768000348 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 262768000349 active site 262768000350 motif 3; other site 262768000351 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 262768000352 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 262768000353 Ligand Binding Site [chemical binding]; other site 262768000354 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 262768000355 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768000356 Walker A motif; other site 262768000357 ATP binding site [chemical binding]; other site 262768000358 Walker B motif; other site 262768000359 arginine finger; other site 262768000360 Peptidase family M41; Region: Peptidase_M41; pfam01434 262768000361 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 262768000362 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 262768000363 RNA binding surface [nucleotide binding]; other site 262768000364 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 262768000365 active site 262768000366 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262768000367 Walker A/P-loop; other site 262768000368 ATP binding site [chemical binding]; other site 262768000369 ABC transporter; Region: ABC_tran; pfam00005 262768000370 Q-loop/lid; other site 262768000371 ABC transporter signature motif; other site 262768000372 Walker B; other site 262768000373 D-loop; other site 262768000374 H-loop/switch region; other site 262768000375 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 262768000376 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 262768000377 Protein of unknown function (DUF970); Region: DUF970; cl17525 262768000378 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 262768000379 16S/18S rRNA binding site [nucleotide binding]; other site 262768000380 S13e-L30e interaction site [polypeptide binding]; other site 262768000381 25S rRNA binding site [nucleotide binding]; other site 262768000382 DJ-1 family protein; Region: not_thiJ; TIGR01383 262768000383 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 262768000384 conserved cys residue [active] 262768000385 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 262768000386 23S rRNA interface [nucleotide binding]; other site 262768000387 L3 interface [polypeptide binding]; other site 262768000388 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 262768000389 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 262768000390 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 262768000391 active site 262768000392 HIGH motif; other site 262768000393 KMSKS motif; other site 262768000394 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 262768000395 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 262768000396 active site 262768000397 HIGH motif; other site 262768000398 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 262768000399 active site 262768000400 KMSKS motif; other site 262768000401 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 262768000402 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 262768000403 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 262768000404 active site 262768000405 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 262768000406 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 262768000407 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 262768000408 Ligand Binding Site [chemical binding]; other site 262768000409 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 262768000410 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 262768000411 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 262768000412 dimer interface [polypeptide binding]; other site 262768000413 substrate binding site [chemical binding]; other site 262768000414 metal binding sites [ion binding]; metal-binding site 262768000415 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 262768000416 SmpB-tmRNA interface; other site 262768000417 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 262768000418 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 262768000419 NusA N-terminal domain; Region: NusA_N; pfam08529 262768000420 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 262768000421 RNA binding site [nucleotide binding]; other site 262768000422 homodimer interface [polypeptide binding]; other site 262768000423 NusA-like KH domain; Region: KH_5; pfam13184 262768000424 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 262768000425 G-X-X-G motif; other site 262768000426 Protein of unknown function (DUF448); Region: DUF448; pfam04296 262768000427 putative RNA binding cleft [nucleotide binding]; other site 262768000428 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 262768000429 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 262768000430 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 262768000431 G1 box; other site 262768000432 putative GEF interaction site [polypeptide binding]; other site 262768000433 GTP/Mg2+ binding site [chemical binding]; other site 262768000434 Switch I region; other site 262768000435 G2 box; other site 262768000436 G3 box; other site 262768000437 Switch II region; other site 262768000438 G4 box; other site 262768000439 G5 box; other site 262768000440 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 262768000441 Translation-initiation factor 2; Region: IF-2; pfam11987 262768000442 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 262768000443 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 262768000444 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 262768000445 putative active site [active] 262768000446 catalytic residue [active] 262768000447 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 262768000448 Domain of unknown function DUF21; Region: DUF21; pfam01595 262768000449 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 262768000450 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 262768000451 Transporter associated domain; Region: CorC_HlyC; pfam03471 262768000452 primosomal protein N' Region: priA; TIGR00595 262768000453 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 262768000454 ATP binding site [chemical binding]; other site 262768000455 putative Mg++ binding site [ion binding]; other site 262768000456 helicase superfamily c-terminal domain; Region: HELICc; smart00490 262768000457 nucleotide binding region [chemical binding]; other site 262768000458 ATP-binding site [chemical binding]; other site 262768000459 Peptidase family M41; Region: Peptidase_M41; pfam01434 262768000460 retinal-specific rim ABC transporter; Region: rim_protein; TIGR01257 262768000461 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 262768000462 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 262768000463 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 262768000464 propionate/acetate kinase; Provisional; Region: PRK12379 262768000465 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768000466 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768000467 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768000468 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 262768000469 Catalytic site [active] 262768000470 Protein of unknown function (DUF443); Region: DUF443; cl04467 262768000471 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 262768000472 ligand binding site [chemical binding]; other site 262768000473 active site 262768000474 UGI interface [polypeptide binding]; other site 262768000475 catalytic site [active] 262768000476 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 262768000477 trimer interface [polypeptide binding]; other site 262768000478 active site 262768000479 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 262768000480 rRNA interaction site [nucleotide binding]; other site 262768000481 S8 interaction site; other site 262768000482 putative laminin-1 binding site; other site 262768000483 elongation factor Ts; Provisional; Region: tsf; PRK09377 262768000484 UBA/TS-N domain; Region: UBA; pfam00627 262768000485 Elongation factor TS; Region: EF_TS; pfam00889 262768000486 Elongation factor TS; Region: EF_TS; pfam00889 262768000487 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 262768000488 putative nucleotide binding site [chemical binding]; other site 262768000489 uridine monophosphate binding site [chemical binding]; other site 262768000490 homohexameric interface [polypeptide binding]; other site 262768000491 ribosome recycling factor; Reviewed; Region: frr; PRK00083 262768000492 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 262768000493 hinge region; other site 262768000494 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 262768000495 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 262768000496 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 262768000497 triosephosphate isomerase; Provisional; Region: PRK14565 262768000498 substrate binding site [chemical binding]; other site 262768000499 dimer interface [polypeptide binding]; other site 262768000500 catalytic triad [active] 262768000501 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 262768000502 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 262768000503 active site 262768000504 motif I; other site 262768000505 motif II; other site 262768000506 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 262768000507 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 262768000508 intersubunit interface [polypeptide binding]; other site 262768000509 active site 262768000510 zinc binding site [ion binding]; other site 262768000511 Na+ binding site [ion binding]; other site 262768000512 Phosphoglycerate kinase; Region: PGK; pfam00162 262768000513 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 262768000514 substrate binding site [chemical binding]; other site 262768000515 hinge regions; other site 262768000516 ADP binding site [chemical binding]; other site 262768000517 catalytic site [active] 262768000518 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 262768000519 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 262768000520 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 262768000521 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 262768000522 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 262768000523 active site 262768000524 Zn binding site [ion binding]; other site 262768000525 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13632 262768000526 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 262768000527 Walker A/P-loop; other site 262768000528 ATP binding site [chemical binding]; other site 262768000529 Q-loop/lid; other site 262768000530 ABC transporter signature motif; other site 262768000531 Walker B; other site 262768000532 D-loop; other site 262768000533 H-loop/switch region; other site 262768000534 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 262768000535 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 262768000536 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 262768000537 dimer interface [polypeptide binding]; other site 262768000538 active site 262768000539 glycine-pyridoxal phosphate binding site [chemical binding]; other site 262768000540 folate binding site [chemical binding]; other site 262768000541 Predicted GTPases [General function prediction only]; Region: COG1162 262768000542 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 262768000543 RNA binding site [nucleotide binding]; other site 262768000544 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 262768000545 GTPase/Zn-binding domain interface [polypeptide binding]; other site 262768000546 GTP/Mg2+ binding site [chemical binding]; other site 262768000547 G4 box; other site 262768000548 G5 box; other site 262768000549 G1 box; other site 262768000550 Switch I region; other site 262768000551 G2 box; other site 262768000552 G3 box; other site 262768000553 Switch II region; other site 262768000554 GTP-binding protein YchF; Reviewed; Region: PRK09601 262768000555 YchF GTPase; Region: YchF; cd01900 262768000556 G1 box; other site 262768000557 GTP/Mg2+ binding site [chemical binding]; other site 262768000558 Switch I region; other site 262768000559 G2 box; other site 262768000560 Switch II region; other site 262768000561 G3 box; other site 262768000562 G4 box; other site 262768000563 G5 box; other site 262768000564 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 262768000565 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 262768000566 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 262768000567 active site 262768000568 HIGH motif; other site 262768000569 nucleotide binding site [chemical binding]; other site 262768000570 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 262768000571 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 262768000572 active site 262768000573 KMSKS motif; other site 262768000574 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 262768000575 tRNA binding surface [nucleotide binding]; other site 262768000576 anticodon binding site; other site 262768000577 Uncharacterized conserved protein [Function unknown]; Region: COG1284 262768000578 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 262768000579 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 262768000580 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 262768000581 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 262768000582 Soluble P-type ATPase [General function prediction only]; Region: COG4087 262768000583 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 262768000584 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 262768000585 Zn binding site [ion binding]; other site 262768000586 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 262768000587 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 262768000588 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768000589 dimer interface [polypeptide binding]; other site 262768000590 conserved gate region; other site 262768000591 putative PBP binding loops; other site 262768000592 ABC-ATPase subunit interface; other site 262768000593 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 262768000594 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768000595 dimer interface [polypeptide binding]; other site 262768000596 conserved gate region; other site 262768000597 ABC-ATPase subunit interface; other site 262768000598 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 262768000599 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; cd00995 262768000600 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 262768000601 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 262768000602 Walker A/P-loop; other site 262768000603 ATP binding site [chemical binding]; other site 262768000604 Q-loop/lid; other site 262768000605 ABC transporter signature motif; other site 262768000606 Walker B; other site 262768000607 D-loop; other site 262768000608 H-loop/switch region; other site 262768000609 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 262768000610 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 262768000611 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 262768000612 ABC transporter signature motif; other site 262768000613 Walker B; other site 262768000614 D-loop; other site 262768000615 H-loop/switch region; other site 262768000616 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 262768000617 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 262768000618 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 262768000619 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 262768000620 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 262768000621 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 262768000622 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 262768000623 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 262768000624 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 262768000625 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 262768000626 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 262768000627 putative translocon binding site; other site 262768000628 protein-rRNA interface [nucleotide binding]; other site 262768000629 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 262768000630 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 262768000631 G-X-X-G motif; other site 262768000632 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 262768000633 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 262768000634 5S rRNA interface [nucleotide binding]; other site 262768000635 23S rRNA interface [nucleotide binding]; other site 262768000636 putative antibiotic binding site [chemical binding]; other site 262768000637 L25 interface [polypeptide binding]; other site 262768000638 L27 interface [polypeptide binding]; other site 262768000639 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 262768000640 putative translocon interaction site; other site 262768000641 signal recognition particle (SRP54) interaction site; other site 262768000642 L23 interface [polypeptide binding]; other site 262768000643 trigger factor interaction site; other site 262768000644 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 262768000645 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 262768000646 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 262768000647 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 262768000648 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 262768000649 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 262768000650 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 262768000651 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 262768000652 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 262768000653 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 262768000654 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 262768000655 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 262768000656 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 262768000657 23S rRNA interface [nucleotide binding]; other site 262768000658 5S rRNA interface [nucleotide binding]; other site 262768000659 L27 interface [polypeptide binding]; other site 262768000660 L5 interface [polypeptide binding]; other site 262768000661 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 262768000662 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 262768000663 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 262768000664 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 262768000665 23S rRNA binding site [nucleotide binding]; other site 262768000666 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 262768000667 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 262768000668 SecY translocase; Region: SecY; pfam00344 262768000669 adenylate kinase; Reviewed; Region: adk; PRK00279 262768000670 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 262768000671 AMP-binding site [chemical binding]; other site 262768000672 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 262768000673 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 262768000674 active site 262768000675 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 262768000676 rRNA binding site [nucleotide binding]; other site 262768000677 predicted 30S ribosome binding site; other site 262768000678 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 262768000679 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 262768000680 30S ribosomal protein S13; Region: bact_S13; TIGR03631 262768000681 30S ribosomal protein S11; Validated; Region: PRK05309 262768000682 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 262768000683 alphaNTD homodimer interface [polypeptide binding]; other site 262768000684 RNA polymerases D; Region: RPOLD; smart00662 262768000685 alphaNTD - beta interaction site [polypeptide binding]; other site 262768000686 alphaNTD - beta' interaction site [polypeptide binding]; other site 262768000687 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 262768000688 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 262768000689 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 262768000690 dimerization interface 3.5A [polypeptide binding]; other site 262768000691 active site 262768000692 thymidylate kinase; Validated; Region: tmk; PRK00698 262768000693 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 262768000694 TMP-binding site; other site 262768000695 ATP-binding site [chemical binding]; other site 262768000696 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 262768000697 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 262768000698 Predicted methyltransferases [General function prediction only]; Region: COG0313 262768000699 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 262768000700 putative SAM binding site [chemical binding]; other site 262768000701 putative homodimer interface [polypeptide binding]; other site 262768000702 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 262768000703 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 262768000704 active site 262768000705 HIGH motif; other site 262768000706 KMSKS motif; other site 262768000707 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 262768000708 tRNA binding surface [nucleotide binding]; other site 262768000709 anticodon binding site; other site 262768000710 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768000711 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768000712 Walker A motif; other site 262768000713 ATP binding site [chemical binding]; other site 262768000714 Walker B motif; other site 262768000715 arginine finger; other site 262768000716 Peptidase family M41; Region: Peptidase_M41; pfam01434 262768000717 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 262768000718 catalytic residues [active] 262768000719 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 262768000720 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 262768000721 RNA binding site [nucleotide binding]; other site 262768000722 active site 262768000723 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 262768000724 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 262768000725 RNA binding surface [nucleotide binding]; other site 262768000726 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 262768000727 active site 262768000728 cytidylate kinase; Provisional; Region: cmk; PRK00023 262768000729 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 262768000730 CMP-binding site; other site 262768000731 The sites determining sugar specificity; other site 262768000732 GTP-binding protein Der; Reviewed; Region: PRK00093 262768000733 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 262768000734 G1 box; other site 262768000735 GTP/Mg2+ binding site [chemical binding]; other site 262768000736 Switch I region; other site 262768000737 G2 box; other site 262768000738 Switch II region; other site 262768000739 G3 box; other site 262768000740 G4 box; other site 262768000741 G5 box; other site 262768000742 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 262768000743 G1 box; other site 262768000744 GTP/Mg2+ binding site [chemical binding]; other site 262768000745 Switch I region; other site 262768000746 G2 box; other site 262768000747 G3 box; other site 262768000748 Switch II region; other site 262768000749 G4 box; other site 262768000750 G5 box; other site 262768000751 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 262768000752 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 262768000753 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 262768000754 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 262768000755 IHF dimer interface [polypeptide binding]; other site 262768000756 IHF - DNA interface [nucleotide binding]; other site 262768000757 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 262768000758 proline aminopeptidase P II; Provisional; Region: PRK10879 262768000759 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 262768000760 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 262768000761 active site 262768000762 prolyl-tRNA synthetase; Provisional; Region: PRK08661 262768000763 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 262768000764 dimer interface [polypeptide binding]; other site 262768000765 motif 1; other site 262768000766 active site 262768000767 motif 2; other site 262768000768 motif 3; other site 262768000769 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 in...; Region: ProRS_anticodon_zinc; cd00862 262768000770 anticodon binding site; other site 262768000771 zinc-binding site [ion binding]; other site 262768000772 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 262768000773 Ribonuclease P; Region: Ribonuclease_P; pfam00825 262768000774 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 262768000775 potential protein location (conserved hypothetical protein [Onion yellows phytoplasma OY-M]) that overlaps RNA (23S ribosomal RNA) 262768000776 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 262768000777 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 262768000778 RNase E interface [polypeptide binding]; other site 262768000779 trimer interface [polypeptide binding]; other site 262768000780 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 262768000781 RNase E interface [polypeptide binding]; other site 262768000782 trimer interface [polypeptide binding]; other site 262768000783 active site 262768000784 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 262768000785 putative nucleic acid binding region [nucleotide binding]; other site 262768000786 G-X-X-G motif; other site 262768000787 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 262768000788 RNA binding site [nucleotide binding]; other site 262768000789 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 262768000790 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 262768000791 Soluble P-type ATPase [General function prediction only]; Region: COG4087 262768000792 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 262768000793 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 262768000794 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 262768000795 Ribosomal protein L33; Region: Ribosomal_L33; pfam00471 262768000796 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 262768000797 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 262768000798 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 262768000799 putative homodimer interface [polypeptide binding]; other site 262768000800 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 262768000801 heterodimer interface [polypeptide binding]; other site 262768000802 homodimer interface [polypeptide binding]; other site 262768000803 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 262768000804 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 262768000805 23S rRNA interface [nucleotide binding]; other site 262768000806 L7/L12 interface [polypeptide binding]; other site 262768000807 putative thiostrepton binding site; other site 262768000808 L25 interface [polypeptide binding]; other site 262768000809 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 262768000810 mRNA/rRNA interface [nucleotide binding]; other site 262768000811 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 262768000812 23S rRNA interface [nucleotide binding]; other site 262768000813 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 262768000814 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 262768000815 core dimer interface [polypeptide binding]; other site 262768000816 peripheral dimer interface [polypeptide binding]; other site 262768000817 L10 interface [polypeptide binding]; other site 262768000818 L11 interface [polypeptide binding]; other site 262768000819 putative EF-Tu interaction site [polypeptide binding]; other site 262768000820 putative EF-G interaction site [polypeptide binding]; other site 262768000821 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; cl17585 262768000822 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 262768000823 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 262768000824 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 262768000825 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 262768000826 RPB10 interaction site [polypeptide binding]; other site 262768000827 RPB1 interaction site [polypeptide binding]; other site 262768000828 RPB11 interaction site [polypeptide binding]; other site 262768000829 RPB3 interaction site [polypeptide binding]; other site 262768000830 RPB12 interaction site [polypeptide binding]; other site 262768000831 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 262768000832 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 262768000833 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 262768000834 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 262768000835 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 262768000836 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 262768000837 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 262768000838 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 262768000839 G-loop; other site 262768000840 DNA binding site [nucleotide binding] 262768000841 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 262768000842 16S rRNA interaction site [nucleotide binding]; other site 262768000843 streptomycin interaction site [chemical binding]; other site 262768000844 23S rRNA interaction site [nucleotide binding]; other site 262768000845 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 262768000846 30S ribosomal protein S7; Validated; Region: PRK05302 262768000847 elongation factor G; Reviewed; Region: PRK00007 262768000848 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 262768000849 G1 box; other site 262768000850 putative GEF interaction site [polypeptide binding]; other site 262768000851 GTP/Mg2+ binding site [chemical binding]; other site 262768000852 Switch I region; other site 262768000853 G2 box; other site 262768000854 G3 box; other site 262768000855 Switch II region; other site 262768000856 G4 box; other site 262768000857 G5 box; other site 262768000858 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 262768000859 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 262768000860 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 262768000861 elongation factor Tu; Reviewed; Region: PRK00049 262768000862 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 262768000863 G1 box; other site 262768000864 GEF interaction site [polypeptide binding]; other site 262768000865 GTP/Mg2+ binding site [chemical binding]; other site 262768000866 Switch I region; other site 262768000867 G2 box; other site 262768000868 G3 box; other site 262768000869 Switch II region; other site 262768000870 G4 box; other site 262768000871 G5 box; other site 262768000872 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 262768000873 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 262768000874 Antibiotic Binding Site [chemical binding]; other site 262768000875 Bax inhibitor 1 like; Region: BaxI_1; cl17691 262768000876 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 262768000877 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 262768000878 S-adenosylmethionine binding site [chemical binding]; other site 262768000879 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 262768000880 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 262768000881 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 262768000882 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 262768000883 RmuC family; Region: RmuC; pfam02646 262768000884 ribonuclease Y; Region: RNase_Y; TIGR03319 262768000885 KH domain; Region: KH_1; pfam00013 262768000886 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 262768000887 Zn2+ binding site [ion binding]; other site 262768000888 Mg2+ binding site [ion binding]; other site 262768000889 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 262768000890 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 262768000891 active site 262768000892 metal binding site [ion binding]; metal-binding site 262768000893 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 262768000894 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 262768000895 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 262768000896 elongation factor P; Validated; Region: PRK00529 262768000897 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 262768000898 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 262768000899 RNA binding site [nucleotide binding]; other site 262768000900 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 262768000901 RNA binding site [nucleotide binding]; other site 262768000902 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 262768000903 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 262768000904 GTP/Mg2+ binding site [chemical binding]; other site 262768000905 G4 box; other site 262768000906 G5 box; other site 262768000907 G1 box; other site 262768000908 Switch I region; other site 262768000909 G2 box; other site 262768000910 G3 box; other site 262768000911 Switch II region; other site 262768000912 DNA topoisomerase I; Validated; Region: PRK05582 262768000913 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 262768000914 active site 262768000915 interdomain interaction site; other site 262768000916 putative metal-binding site [ion binding]; other site 262768000917 nucleotide binding site [chemical binding]; other site 262768000918 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 262768000919 domain I; other site 262768000920 DNA binding groove [nucleotide binding] 262768000921 phosphate binding site [ion binding]; other site 262768000922 domain II; other site 262768000923 domain III; other site 262768000924 nucleotide binding site [chemical binding]; other site 262768000925 catalytic site [active] 262768000926 domain IV; other site 262768000927 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 262768000928 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 262768000929 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 262768000930 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 262768000931 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 262768000932 6-phosphofructokinase; Provisional; Region: PRK03202 262768000933 active site 262768000934 ADP/pyrophosphate binding site [chemical binding]; other site 262768000935 dimerization interface [polypeptide binding]; other site 262768000936 allosteric effector site; other site 262768000937 fructose-1,6-bisphosphate binding site; other site 262768000938 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 262768000939 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 262768000940 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 262768000941 active site 262768000942 dimer interface [polypeptide binding]; other site 262768000943 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 262768000944 dimer interface [polypeptide binding]; other site 262768000945 active site 262768000946 enolase; Provisional; Region: eno; PRK00077 262768000947 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 262768000948 dimer interface [polypeptide binding]; other site 262768000949 metal binding site [ion binding]; metal-binding site 262768000950 substrate binding pocket [chemical binding]; other site 262768000951 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 262768000952 phosphoglyceromutase; Provisional; Region: PRK05434 262768000953 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 262768000954 pyruvate kinase; Provisional; Region: PRK05826 262768000955 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; cl17342 262768000956 domain interfaces; other site 262768000957 active site 262768000958 dipeptidase PepV; Reviewed; Region: PRK07318 262768000959 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 262768000960 active site 262768000961 metal binding site [ion binding]; metal-binding site 262768000962 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 262768000963 metal binding site [ion binding]; metal-binding site 262768000964 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 262768000965 thymidylate synthase; Reviewed; Region: thyA; PRK01827 262768000966 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 262768000967 dimerization interface [polypeptide binding]; other site 262768000968 active site 262768000969 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 262768000970 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 262768000971 folate binding site [chemical binding]; other site 262768000972 NADP+ binding site [chemical binding]; other site 262768000973 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 262768000974 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 262768000975 putative acyl-acceptor binding pocket; other site 262768000976 OsmC-like protein; Region: OsmC; pfam02566 262768000977 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 262768000978 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 262768000979 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 262768000980 S-adenosylmethionine binding site [chemical binding]; other site 262768000981 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 262768000982 Zn2+ binding site [ion binding]; other site 262768000983 Mg2+ binding site [ion binding]; other site 262768000984 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 262768000985 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 262768000986 active site 262768000987 motif I; other site 262768000988 motif II; other site 262768000989 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 262768000990 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 262768000991 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 262768000992 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 262768000993 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 262768000994 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 262768000995 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 262768000996 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 262768000997 motif 1; other site 262768000998 active site 262768000999 motif 2; other site 262768001000 motif 3; other site 262768001001 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 262768001002 DHHA1 domain; Region: DHHA1; pfam02272 262768001003 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 262768001004 S-adenosylmethionine binding site [chemical binding]; other site 262768001005 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001007 Walker A motif; other site 262768001008 ATP binding site [chemical binding]; other site 262768001009 Walker B motif; other site 262768001010 arginine finger; other site 262768001011 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 262768001012 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 262768001013 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 262768001014 Phage-related minor tail protein [Function unknown]; Region: COG5280 262768001015 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768001016 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768001017 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 262768001018 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 262768001019 Family description; Region: UvrD_C_2; pfam13538 262768001020 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001021 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001022 Walker A motif; other site 262768001023 ATP binding site [chemical binding]; other site 262768001024 Walker B motif; other site 262768001025 arginine finger; other site 262768001026 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 262768001027 IHF dimer interface [polypeptide binding]; other site 262768001028 IHF - DNA interface [nucleotide binding]; other site 262768001029 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 262768001030 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001031 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 262768001032 dimer interface [polypeptide binding]; other site 262768001033 ssDNA binding site [nucleotide binding]; other site 262768001034 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001035 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001036 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 262768001037 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001038 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001039 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 262768001040 dimer interface [polypeptide binding]; other site 262768001041 ssDNA binding site [nucleotide binding]; other site 262768001042 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001043 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 262768001044 IHF dimer interface [polypeptide binding]; other site 262768001045 IHF - DNA interface [nucleotide binding]; other site 262768001046 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001047 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001048 Walker A motif; other site 262768001049 ATP binding site [chemical binding]; other site 262768001050 Walker B motif; other site 262768001051 arginine finger; other site 262768001052 SVM protein signal sequence; Region: SVM_signal; pfam12113 262768001053 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 262768001054 potential frameshift: common BLAST hit: gi|39939131|ref|NP_950897.1| replicative DNA helicase 262768001055 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001056 Walker A motif; other site 262768001057 ATP binding site [chemical binding]; other site 262768001058 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001059 CHC2 zinc finger; Region: zf-CHC2; cl17510 262768001060 putative transposase OrfB; Reviewed; Region: PHA02517 262768001061 HTH-like domain; Region: HTH_21; pfam13276 262768001062 Integrase core domain; Region: rve; pfam00665 262768001063 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 262768001064 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001065 Walker A motif; other site 262768001066 ATP binding site [chemical binding]; other site 262768001067 Walker B motif; other site 262768001068 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 262768001069 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 262768001070 putative active site [active] 262768001071 putative NTP binding site [chemical binding]; other site 262768001072 putative nucleic acid binding site [nucleotide binding]; other site 262768001073 Type II intron maturase; Region: Intron_maturas2; pfam01348 262768001074 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 262768001075 TMP-binding site; other site 262768001076 ATP-binding site [chemical binding]; other site 262768001077 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 262768001078 SVM protein signal sequence; Region: SVM_signal; pfam12113 262768001079 phosphodiesterase; Provisional; Region: PRK12704 262768001080 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 262768001081 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 262768001082 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 262768001083 Family description; Region: UvrD_C_2; pfam13538 262768001084 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001085 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001086 Walker A motif; other site 262768001087 ATP binding site [chemical binding]; other site 262768001088 Walker B motif; other site 262768001089 arginine finger; other site 262768001090 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 262768001091 IHF dimer interface [polypeptide binding]; other site 262768001092 IHF - DNA interface [nucleotide binding]; other site 262768001093 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 262768001094 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001095 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 262768001096 dimer interface [polypeptide binding]; other site 262768001097 ssDNA binding site [nucleotide binding]; other site 262768001098 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001099 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001100 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 262768001101 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001102 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001103 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 262768001104 dimer interface [polypeptide binding]; other site 262768001105 ssDNA binding site [nucleotide binding]; other site 262768001106 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001107 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 262768001108 IHF dimer interface [polypeptide binding]; other site 262768001109 IHF - DNA interface [nucleotide binding]; other site 262768001110 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001111 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001112 Walker A motif; other site 262768001113 ATP binding site [chemical binding]; other site 262768001114 Walker B motif; other site 262768001115 arginine finger; other site 262768001116 SVM protein signal sequence; Region: SVM_signal; pfam12113 262768001117 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 262768001118 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 262768001119 TMP-binding site; other site 262768001120 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001121 Walker A motif; other site 262768001122 ATP binding site [chemical binding]; other site 262768001123 CHC2 zinc finger; Region: zf-CHC2; cl17510 262768001124 M domain of GW182; Region: M_domain; pfam12938 262768001125 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 262768001126 potential frameshift: common BLAST hit: gi|39939128|ref|NP_950894.1| putative transposase 262768001127 HTH-like domain; Region: HTH_21; pfam13276 262768001128 Integrase core domain; Region: rve; pfam00665 262768001129 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 262768001130 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001131 Walker A motif; other site 262768001132 ATP binding site [chemical binding]; other site 262768001133 Walker B motif; other site 262768001134 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 262768001135 TMP-binding site; other site 262768001136 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 262768001137 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001138 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001139 Walker A motif; other site 262768001140 ATP binding site [chemical binding]; other site 262768001141 Walker B motif; other site 262768001142 arginine finger; other site 262768001143 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 262768001144 IHF - DNA interface [nucleotide binding]; other site 262768001145 IHF dimer interface [polypeptide binding]; other site 262768001146 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 262768001147 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001148 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 262768001149 dimer interface [polypeptide binding]; other site 262768001150 ssDNA binding site [nucleotide binding]; other site 262768001151 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001152 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001153 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 262768001154 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768001155 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768001156 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768001157 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 262768001158 IHF - DNA interface [nucleotide binding]; other site 262768001159 IHF dimer interface [polypeptide binding]; other site 262768001160 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001161 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001162 Walker A motif; other site 262768001163 ATP binding site [chemical binding]; other site 262768001164 Walker B motif; other site 262768001165 arginine finger; other site 262768001166 HTH-like domain; Region: HTH_21; pfam13276 262768001167 Integrase core domain; Region: rve; pfam00665 262768001168 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001169 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 262768001170 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001171 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 262768001172 dimer interface [polypeptide binding]; other site 262768001173 ssDNA binding site [nucleotide binding]; other site 262768001174 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001175 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 262768001176 Family description; Region: UvrD_C_2; pfam13538 262768001177 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768001178 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 262768001179 IHF - DNA interface [nucleotide binding]; other site 262768001180 IHF dimer interface [polypeptide binding]; other site 262768001181 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001182 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 262768001183 dimer interface [polypeptide binding]; other site 262768001184 ssDNA binding site [nucleotide binding]; other site 262768001185 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001186 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 262768001187 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001188 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 262768001189 Peptidase family M41; Region: Peptidase_M41; pfam01434 262768001190 excinuclease ABC subunit B; Provisional; Region: PRK05298 262768001191 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 262768001192 ATP binding site [chemical binding]; other site 262768001193 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 262768001194 nucleotide binding region [chemical binding]; other site 262768001195 ATP-binding site [chemical binding]; other site 262768001196 Ultra-violet resistance protein B; Region: UvrB; pfam12344 262768001197 UvrB/uvrC motif; Region: UVR; pfam02151 262768001198 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 262768001199 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 262768001200 catalytic site [active] 262768001201 metal binding site [ion binding]; metal-binding site 262768001202 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 262768001203 pyridoxamine kinase; Validated; Region: PRK05756 262768001204 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 262768001205 dimer interface [polypeptide binding]; other site 262768001206 pyridoxal binding site [chemical binding]; other site 262768001207 ATP binding site [chemical binding]; other site 262768001208 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 262768001209 FMN binding site [chemical binding]; other site 262768001210 dimer interface [polypeptide binding]; other site 262768001211 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 262768001212 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 262768001213 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 262768001214 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 262768001215 nucleotide binding pocket [chemical binding]; other site 262768001216 K-X-D-G motif; other site 262768001217 catalytic site [active] 262768001218 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 262768001219 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 262768001220 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 262768001221 Dimer interface [polypeptide binding]; other site 262768001222 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 262768001223 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 262768001224 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 262768001225 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 262768001226 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 262768001227 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 262768001228 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 262768001229 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 262768001230 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 262768001231 transcription antitermination factor NusB; Region: nusB; TIGR01951 262768001232 putative RNA binding site [nucleotide binding]; other site 262768001233 GTP-binding protein LepA; Provisional; Region: PRK05433 262768001234 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 262768001235 G1 box; other site 262768001236 putative GEF interaction site [polypeptide binding]; other site 262768001237 GTP/Mg2+ binding site [chemical binding]; other site 262768001238 Switch I region; other site 262768001239 G2 box; other site 262768001240 G3 box; other site 262768001241 Switch II region; other site 262768001242 G4 box; other site 262768001243 G5 box; other site 262768001244 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 262768001245 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 262768001246 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 262768001247 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 262768001248 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 262768001249 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 262768001250 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001251 Walker A motif; other site 262768001252 ATP binding site [chemical binding]; other site 262768001253 Walker B motif; other site 262768001254 arginine finger; other site 262768001255 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 262768001256 trigger factor; Region: tig; TIGR00115 262768001257 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 262768001258 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 262768001259 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 262768001260 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 262768001261 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 262768001262 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 262768001263 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 262768001264 DEAD-like helicases superfamily; Region: DEXDc; smart00487 262768001265 ATP binding site [chemical binding]; other site 262768001266 putative Mg++ binding site [ion binding]; other site 262768001267 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 262768001268 nucleotide binding region [chemical binding]; other site 262768001269 ATP-binding site [chemical binding]; other site 262768001270 endonuclease IV; Provisional; Region: PRK01060 262768001271 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 262768001272 AP (apurinic/apyrimidinic) site pocket; other site 262768001273 DNA interaction; other site 262768001274 Metal-binding active site; metal-binding site 262768001275 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 262768001276 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 262768001277 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 262768001278 active site 262768001279 HIGH motif; other site 262768001280 KMSK motif region; other site 262768001281 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 262768001282 tRNA binding surface [nucleotide binding]; other site 262768001283 anticodon binding site; other site 262768001284 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 262768001285 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 262768001286 substrate binding pocket [chemical binding]; other site 262768001287 membrane-bound complex binding site; other site 262768001288 hinge residues; other site 262768001289 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 262768001290 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768001291 dimer interface [polypeptide binding]; other site 262768001292 conserved gate region; other site 262768001293 putative PBP binding loops; other site 262768001294 ABC-ATPase subunit interface; other site 262768001295 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 262768001296 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 262768001297 substrate binding pocket [chemical binding]; other site 262768001298 membrane-bound complex binding site; other site 262768001299 hinge residues; other site 262768001300 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 262768001301 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768001302 dimer interface [polypeptide binding]; other site 262768001303 conserved gate region; other site 262768001304 putative PBP binding loops; other site 262768001305 ABC-ATPase subunit interface; other site 262768001306 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768001307 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 262768001308 dimer interface [polypeptide binding]; other site 262768001309 conserved gate region; other site 262768001310 ABC-ATPase subunit interface; other site 262768001311 DNA polymerase III PolC; Validated; Region: polC; PRK00448 262768001312 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 262768001313 active site 262768001314 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 262768001315 active site 262768001316 catalytic site [active] 262768001317 substrate binding site [chemical binding]; other site 262768001318 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 262768001319 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 262768001320 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 262768001321 active site 262768001322 HIGH motif; other site 262768001323 dimer interface [polypeptide binding]; other site 262768001324 KMSKS motif; other site 262768001325 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 262768001326 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 262768001327 trimerization site [polypeptide binding]; other site 262768001328 active site 262768001329 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 262768001330 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 262768001331 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 262768001332 catalytic residue [active] 262768001333 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 262768001334 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 262768001335 active site 262768001336 HIGH motif; other site 262768001337 dimer interface [polypeptide binding]; other site 262768001338 KMSKS motif; other site 262768001339 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 262768001340 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 262768001341 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 262768001342 peptide chain release factor 2; Validated; Region: prfB; PRK00578 262768001343 PCRF domain; Region: PCRF; pfam03462 262768001344 RF-1 domain; Region: RF-1; pfam00472 262768001345 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 262768001346 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 262768001347 ATP binding site [chemical binding]; other site 262768001348 putative Mg++ binding site [ion binding]; other site 262768001349 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 262768001350 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 262768001351 nudix motif; other site 262768001352 Peptidase family M41; Region: Peptidase_M41; pfam01434 262768001353 ATPase family associated with various cellular activities (AAA); Region: AAA; pfam00004 262768001354 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768001355 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768001356 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768001357 dimer interface [polypeptide binding]; other site 262768001358 conserved gate region; other site 262768001359 putative PBP binding loops; other site 262768001360 ABC-ATPase subunit interface; other site 262768001361 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 262768001362 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 262768001363 Walker A/P-loop; other site 262768001364 ATP binding site [chemical binding]; other site 262768001365 Q-loop/lid; other site 262768001366 ABC transporter signature motif; other site 262768001367 Walker B; other site 262768001368 D-loop; other site 262768001369 H-loop/switch region; other site 262768001370 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 262768001371 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 262768001372 substrate binding pocket [chemical binding]; other site 262768001373 membrane-bound complex binding site; other site 262768001374 hinge residues; other site 262768001375 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768001376 dimer interface [polypeptide binding]; other site 262768001377 conserved gate region; other site 262768001378 putative PBP binding loops; other site 262768001379 ABC-ATPase subunit interface; other site 262768001380 potential protein location (conserved hypothetical protein [Onion yellows phytoplasma OY-M]) that overlaps RNA (23S ribosomal RNA) 262768001381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 262768001382 ABC-ATPase subunit interface; other site 262768001383 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 262768001384 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 262768001385 substrate binding pocket [chemical binding]; other site 262768001386 membrane-bound complex binding site; other site 262768001387 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 262768001388 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 262768001389 ATP binding site [chemical binding]; other site 262768001390 Mg2+ binding site [ion binding]; other site 262768001391 G-X-G motif; other site 262768001392 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 262768001393 anchoring element; other site 262768001394 dimer interface [polypeptide binding]; other site 262768001395 ATP binding site [chemical binding]; other site 262768001396 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 262768001397 active site 262768001398 metal binding site [ion binding]; metal-binding site 262768001399 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 262768001400 DNA gyrase subunit A; Validated; Region: PRK05560 262768001401 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 262768001402 CAP-like domain; other site 262768001403 active site 262768001404 primary dimer interface [polypeptide binding]; other site 262768001405 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 262768001406 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 262768001407 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 262768001408 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 262768001409 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 262768001410 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 262768001411 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 262768001412 Glycoprotease family; Region: Peptidase_M22; pfam00814 262768001413 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 262768001414 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 262768001415 Family description; Region: UvrD_C_2; pfam13538 262768001416 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768001417 Protein of unknown function (DUF2963); Region: DUF2963; pfam11178 262768001418 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001419 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001420 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 262768001421 dimer interface [polypeptide binding]; other site 262768001422 ssDNA binding site [nucleotide binding]; other site 262768001423 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001424 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 262768001425 IHF - DNA interface [nucleotide binding]; other site 262768001426 IHF dimer interface [polypeptide binding]; other site 262768001427 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001428 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001429 Walker A motif; other site 262768001430 ATP binding site [chemical binding]; other site 262768001431 Walker B motif; other site 262768001432 arginine finger; other site 262768001433 Protein of unknown function (DUF972); Region: DUF972; pfam06156 262768001434 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 262768001435 thymidylate kinase; Validated; Region: tmk; PRK00698 262768001436 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 262768001437 TMP-binding site; other site 262768001438 ATP-binding site [chemical binding]; other site 262768001439 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 262768001440 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001441 Walker A motif; other site 262768001442 ATP binding site [chemical binding]; other site 262768001443 Walker B motif; other site 262768001444 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 262768001445 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 262768001446 active site 262768001447 metal binding site [ion binding]; metal-binding site 262768001448 interdomain interaction site; other site 262768001449 HTH-like domain; Region: HTH_21; pfam13276 262768001450 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 262768001451 Family description; Region: UvrD_C_2; pfam13538 262768001452 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001453 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001454 Walker A motif; other site 262768001455 ATP binding site [chemical binding]; other site 262768001456 Walker B motif; other site 262768001457 arginine finger; other site 262768001458 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 262768001459 IHF dimer interface [polypeptide binding]; other site 262768001460 IHF - DNA interface [nucleotide binding]; other site 262768001461 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001462 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 262768001463 dimer interface [polypeptide binding]; other site 262768001464 ssDNA binding site [nucleotide binding]; other site 262768001465 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001466 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 262768001467 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001468 SVM protein signal sequence; Region: SVM_signal; pfam12113 262768001469 SVM protein signal sequence; Region: SVM_signal; pfam12113 262768001470 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 262768001471 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 262768001472 TMP-binding site; other site 262768001473 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001474 Walker A motif; other site 262768001475 ATP binding site [chemical binding]; other site 262768001476 CHC2 zinc finger; Region: zf-CHC2; cl17510 262768001477 putative transposase OrfB; Reviewed; Region: PHA02517 262768001478 HTH-like domain; Region: HTH_21; pfam13276 262768001479 Integrase core domain; Region: rve; pfam00665 262768001480 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 262768001481 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 262768001482 active site 262768001483 metal binding site [ion binding]; metal-binding site 262768001484 interdomain interaction site; other site 262768001485 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001486 Walker A motif; other site 262768001487 ATP binding site [chemical binding]; other site 262768001488 Walker B motif; other site 262768001489 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 262768001490 TMP-binding site; other site 262768001491 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 262768001492 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 262768001493 Family description; Region: UvrD_C_2; pfam13538 262768001494 AAA ATPase domain; Region: AAA_16; pfam13191 262768001495 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001496 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001497 Walker A motif; other site 262768001498 ATP binding site [chemical binding]; other site 262768001499 Walker B motif; other site 262768001500 arginine finger; other site 262768001501 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 262768001502 IHF dimer interface [polypeptide binding]; other site 262768001503 IHF - DNA interface [nucleotide binding]; other site 262768001504 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001505 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 262768001506 dimer interface [polypeptide binding]; other site 262768001507 ssDNA binding site [nucleotide binding]; other site 262768001508 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001509 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 262768001510 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001511 putative transposase OrfB; Reviewed; Region: PHA02517 262768001512 HTH-like domain; Region: HTH_21; pfam13276 262768001513 Integrase core domain; Region: rve; pfam00665 262768001514 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 262768001515 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 262768001516 active site 262768001517 metal binding site [ion binding]; metal-binding site 262768001518 interdomain interaction site; other site 262768001519 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001520 Walker A motif; other site 262768001521 ATP binding site [chemical binding]; other site 262768001522 Walker B motif; other site 262768001523 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001524 Walker B motif; other site 262768001525 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 262768001526 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 262768001527 active site 262768001528 metal binding site [ion binding]; metal-binding site 262768001529 interdomain interaction site; other site 262768001530 HTH-like domain; Region: HTH_21; pfam13276 262768001531 Integrase core domain; Region: rve; pfam00665 262768001532 Integrase core domain; Region: rve_3; cl15866 262768001533 SVM protein signal sequence; Region: SVM_signal; pfam12113 262768001534 Peptidase family M41; Region: Peptidase_M41; pfam01434 262768001535 UGMP family protein; Validated; Region: PRK09604 262768001536 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 262768001537 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 262768001538 catalytic center binding site [active] 262768001539 ATP binding site [chemical binding]; other site 262768001540 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 262768001541 dihydropteroate synthase; Region: DHPS; TIGR01496 262768001542 substrate binding pocket [chemical binding]; other site 262768001543 dimer interface [polypeptide binding]; other site 262768001544 inhibitor binding site; inhibition site 262768001545 EDD domain protein, DegV family; Region: DegV; TIGR00762 262768001546 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 262768001547 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 262768001548 magnesium-transporting ATPase; Provisional; Region: PRK15122 262768001549 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 262768001550 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 262768001551 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 262768001552 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 262768001553 motif II; other site 262768001554 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 262768001555 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 262768001556 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 262768001557 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 262768001558 RNA binding surface [nucleotide binding]; other site 262768001559 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 262768001560 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 262768001561 substrate binding pocket [chemical binding]; other site 262768001562 membrane-bound complex binding site; other site 262768001563 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768001564 dimer interface [polypeptide binding]; other site 262768001565 conserved gate region; other site 262768001566 putative PBP binding loops; other site 262768001567 ABC-ATPase subunit interface; other site 262768001568 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 262768001569 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 262768001570 dimer interface [polypeptide binding]; other site 262768001571 putative anticodon binding site; other site 262768001572 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 262768001573 motif 1; other site 262768001574 active site 262768001575 motif 2; other site 262768001576 motif 3; other site 262768001577 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 262768001578 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 262768001579 PHP Thumb interface [polypeptide binding]; other site 262768001580 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 262768001581 asparagine synthetase B; Provisional; Region: asnB; PRK09431 262768001582 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 262768001583 active site 262768001584 dimer interface [polypeptide binding]; other site 262768001585 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 262768001586 Ligand Binding Site [chemical binding]; other site 262768001587 Molecular Tunnel; other site 262768001588 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 262768001589 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 262768001590 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 262768001591 dimer interface [polypeptide binding]; other site 262768001592 motif 1; other site 262768001593 active site 262768001594 motif 2; other site 262768001595 motif 3; other site 262768001596 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 262768001597 putative tRNA-binding site [nucleotide binding]; other site 262768001598 Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]; Region: PheT; COG0072 262768001599 B3/4 domain; Region: B3_4; pfam03483 262768001600 tRNA synthetase B5 domain; Region: B5; pfam03484 262768001601 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 262768001602 dimer interface [polypeptide binding]; other site 262768001603 motif 1; other site 262768001604 motif 3; other site 262768001605 motif 2; other site 262768001606 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 262768001607 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 262768001608 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 262768001609 Walker A/P-loop; other site 262768001610 ATP binding site [chemical binding]; other site 262768001611 Q-loop/lid; other site 262768001612 ABC transporter signature motif; other site 262768001613 Walker B; other site 262768001614 D-loop; other site 262768001615 H-loop/switch region; other site 262768001616 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 262768001617 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 262768001618 TPP-binding site [chemical binding]; other site 262768001619 tetramer interface [polypeptide binding]; other site 262768001620 heterodimer interface [polypeptide binding]; other site 262768001621 phosphorylation loop region [posttranslational modification] 262768001622 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 262768001623 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 262768001624 alpha subunit interface [polypeptide binding]; other site 262768001625 TPP binding site [chemical binding]; other site 262768001626 heterodimer interface [polypeptide binding]; other site 262768001627 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 262768001628 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 262768001629 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 262768001630 E3 interaction surface; other site 262768001631 lipoyl attachment site [posttranslational modification]; other site 262768001632 e3 binding domain; Region: E3_binding; pfam02817 262768001633 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 262768001634 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 262768001635 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 262768001636 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 262768001637 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 262768001638 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 262768001639 active site 262768001640 putative phosphate acyltransferase; Provisional; Region: PRK05331 262768001641 ribonuclease III; Reviewed; Region: rnc; PRK00102 262768001642 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 262768001643 dimerization interface [polypeptide binding]; other site 262768001644 active site 262768001645 metal binding site [ion binding]; metal-binding site 262768001646 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 262768001647 dsRNA binding site [nucleotide binding]; other site 262768001648 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 262768001649 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 262768001650 CTP synthetase; Validated; Region: pyrG; PRK05380 262768001651 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 262768001652 Catalytic site [active] 262768001653 active site 262768001654 UTP binding site [chemical binding]; other site 262768001655 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 262768001656 active site 262768001657 putative oxyanion hole; other site 262768001658 catalytic triad [active] 262768001659 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 262768001660 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 262768001661 DNA-directed RNA polymerase subunit delta; Reviewed; Region: PRK02363 262768001662 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 262768001663 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 262768001664 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001665 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 262768001666 Walker A motif; other site 262768001667 ATP binding site [chemical binding]; other site 262768001668 Walker B motif; other site 262768001669 arginine finger; other site 262768001670 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 262768001671 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 262768001672 putative Mg++ binding site [ion binding]; other site 262768001673 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 262768001674 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 262768001675 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 262768001676 active site 262768001677 HIGH motif; other site 262768001678 nucleotide binding site [chemical binding]; other site 262768001679 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 262768001680 active site 262768001681 KMSKS motif; other site 262768001682 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 262768001683 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 262768001684 Family description; Region: UvrD_C_2; pfam13538 262768001685 putative phage-type endonuclease; Region: phage_rel_nuc; TIGR03033 262768001686 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 262768001687 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 262768001688 GTPase Era; Reviewed; Region: era; PRK00089 262768001689 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 262768001690 G1 box; other site 262768001691 GTP/Mg2+ binding site [chemical binding]; other site 262768001692 Switch I region; other site 262768001693 G2 box; other site 262768001694 Switch II region; other site 262768001695 G3 box; other site 262768001696 G4 box; other site 262768001697 G5 box; other site 262768001698 KH domain; Region: KH_2; pfam07650 262768001699 glycyl-tRNA synthetase; Provisional; Region: PRK04173 262768001700 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 262768001701 motif 1; other site 262768001702 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 262768001703 active site 262768001704 motif 2; other site 262768001705 motif 3; other site 262768001706 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 262768001707 anticodon binding site; other site 262768001708 DNA primase, catalytic core; Region: dnaG; TIGR01391 262768001709 CHC2 zinc finger; Region: zf-CHC2; cl17510 262768001710 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 262768001711 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 262768001712 active site 262768001713 metal binding site [ion binding]; metal-binding site 262768001714 interdomain interaction site; other site 262768001715 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 262768001716 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 262768001717 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001718 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 262768001719 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 262768001720 DNA binding residues [nucleotide binding] 262768001721 Family of unknown function (DUF633); Region: DUF633; pfam04816 262768001722 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 262768001723 HIT family signature motif; other site 262768001724 catalytic residue [active] 262768001725 ribonuclease HIII; Provisional; Region: PRK00996 262768001726 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 262768001727 RNA/DNA hybrid binding site [nucleotide binding]; other site 262768001728 active site 262768001729 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 262768001730 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 262768001731 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 262768001732 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 262768001733 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 262768001734 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 262768001735 active site 262768001736 motif I; other site 262768001737 motif II; other site 262768001738 potential protein location (conserved hypothetical protein [Onion yellows phytoplasma OY-M]) that overlaps RNA (tRNA-G) 262768001739 EDD domain protein, DegV family; Region: DegV; TIGR00762 262768001740 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 262768001741 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 262768001742 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 262768001743 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768001744 dimer interface [polypeptide binding]; other site 262768001745 conserved gate region; other site 262768001746 putative PBP binding loops; other site 262768001747 ABC-ATPase subunit interface; other site 262768001748 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 262768001749 putative transposase OrfB; Reviewed; Region: PHA02517 262768001750 HTH-like domain; Region: HTH_21; pfam13276 262768001751 Integrase core domain; Region: rve; pfam00665 262768001752 Integrase core domain; Region: rve_3; cl15866 262768001753 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 262768001754 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 262768001755 interdomain interaction site; other site 262768001756 active site 262768001757 metal binding site [ion binding]; metal-binding site 262768001758 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001759 Walker A motif; other site 262768001760 ATP binding site [chemical binding]; other site 262768001761 Walker B motif; other site 262768001762 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 262768001763 TMP-binding site; other site 262768001764 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 262768001765 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 262768001766 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001767 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001768 Walker A motif; other site 262768001769 ATP binding site [chemical binding]; other site 262768001770 Walker B motif; other site 262768001771 arginine finger; other site 262768001772 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 262768001773 IHF - DNA interface [nucleotide binding]; other site 262768001774 IHF dimer interface [polypeptide binding]; other site 262768001775 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001776 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 262768001777 dimer interface [polypeptide binding]; other site 262768001778 ssDNA binding site [nucleotide binding]; other site 262768001779 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001780 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 262768001781 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001782 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 262768001783 AAA ATPase domain; Region: AAA_16; pfam13191 262768001784 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001785 Walker A motif; other site 262768001786 ATP binding site [chemical binding]; other site 262768001787 Walker B motif; other site 262768001788 arginine finger; other site 262768001789 Peptidase family M41; Region: Peptidase_M41; pfam01434 262768001790 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262768001791 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 262768001792 Walker A/P-loop; other site 262768001793 ATP binding site [chemical binding]; other site 262768001794 Q-loop/lid; other site 262768001795 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 262768001796 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262768001797 ABC transporter signature motif; other site 262768001798 Walker B; other site 262768001799 D-loop; other site 262768001800 H-loop/switch region; other site 262768001801 TOBE domain; Region: TOBE_2; pfam08402 262768001802 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768001803 dimer interface [polypeptide binding]; other site 262768001804 conserved gate region; other site 262768001805 putative PBP binding loops; other site 262768001806 ABC-ATPase subunit interface; other site 262768001807 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 262768001808 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768001809 dimer interface [polypeptide binding]; other site 262768001810 conserved gate region; other site 262768001811 putative PBP binding loops; other site 262768001812 ABC-ATPase subunit interface; other site 262768001813 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 262768001814 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 262768001815 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001816 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001817 Walker A motif; other site 262768001818 ATP binding site [chemical binding]; other site 262768001819 Walker B motif; other site 262768001820 arginine finger; other site 262768001821 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 262768001822 DAK2 domain; Region: Dak2; pfam02734 262768001823 HTH-like domain; Region: HTH_21; pfam13276 262768001824 Integrase core domain; Region: rve; pfam00665 262768001825 Plasmid replication protein; Region: Rep_2; pfam01719 262768001826 RNA helicase; Region: RNA_helicase; pfam00910 262768001827 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 262768001828 DNA-binding site [nucleotide binding]; DNA binding site 262768001829 RNA-binding motif; other site 262768001830 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001831 Walker A motif; other site 262768001832 ATP binding site [chemical binding]; other site 262768001833 Walker B motif; other site 262768001834 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 262768001835 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 262768001836 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 262768001837 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 262768001838 DNA binding site [nucleotide binding] 262768001839 catalytic residue [active] 262768001840 H2TH interface [polypeptide binding]; other site 262768001841 putative catalytic residues [active] 262768001842 turnover-facilitating residue; other site 262768001843 intercalation triad [nucleotide binding]; other site 262768001844 8OG recognition residue [nucleotide binding]; other site 262768001845 putative reading head residues; other site 262768001846 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 262768001847 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 262768001848 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 262768001849 active site 262768001850 substrate binding site [chemical binding]; other site 262768001851 catalytic site [active] 262768001852 5'-3' exonuclease; Provisional; Region: PRK14976 262768001853 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 262768001854 active site 262768001855 metal binding site 1 [ion binding]; metal-binding site 262768001856 putative 5' ssDNA interaction site; other site 262768001857 metal binding site 3; metal-binding site 262768001858 metal binding site 2 [ion binding]; metal-binding site 262768001859 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 262768001860 putative DNA binding site [nucleotide binding]; other site 262768001861 putative metal binding site [ion binding]; other site 262768001862 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001863 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001864 Walker A motif; other site 262768001865 ATP binding site [chemical binding]; other site 262768001866 Walker B motif; other site 262768001867 arginine finger; other site 262768001868 signal recognition particle protein; Provisional; Region: PRK10867 262768001869 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 262768001870 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 262768001871 P loop; other site 262768001872 GTP binding site [chemical binding]; other site 262768001873 Signal peptide binding domain; Region: SRP_SPB; pfam02978 262768001874 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 262768001875 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 262768001876 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 262768001877 P loop; other site 262768001878 GTP binding site [chemical binding]; other site 262768001879 Integrase core domain; Region: rve; pfam00665 262768001880 putative transposase OrfB; Reviewed; Region: PHA02517 262768001881 HTH-like domain; Region: HTH_21; pfam13276 262768001882 Integrase core domain; Region: rve; pfam00665 262768001883 Integrase core domain; Region: rve_3; cl15866 262768001884 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 262768001885 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 262768001886 active site 262768001887 metal binding site [ion binding]; metal-binding site 262768001888 interdomain interaction site; other site 262768001889 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001890 Walker A motif; other site 262768001891 ATP binding site [chemical binding]; other site 262768001892 Walker B motif; other site 262768001893 thymidylate kinase; Validated; Region: tmk; PRK00698 262768001894 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 262768001895 TMP-binding site; other site 262768001896 ATP-binding site [chemical binding]; other site 262768001897 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 262768001898 SVM protein signal sequence; Region: SVM_signal; pfam12113 262768001899 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 262768001900 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 262768001901 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001902 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001903 Walker A motif; other site 262768001904 ATP binding site [chemical binding]; other site 262768001905 Walker B motif; other site 262768001906 arginine finger; other site 262768001907 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 262768001908 IHF dimer interface [polypeptide binding]; other site 262768001909 IHF - DNA interface [nucleotide binding]; other site 262768001910 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001911 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 262768001912 dimer interface [polypeptide binding]; other site 262768001913 ssDNA binding site [nucleotide binding]; other site 262768001914 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001915 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 262768001916 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001917 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 262768001918 generic binding surface I; other site 262768001919 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 262768001920 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 262768001921 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 262768001922 HSP70 interaction site [polypeptide binding]; other site 262768001923 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 262768001924 substrate binding site [polypeptide binding]; other site 262768001925 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 262768001926 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 262768001927 Zn binding sites [ion binding]; other site 262768001928 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 262768001929 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 262768001930 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 262768001931 nucleotide binding site [chemical binding]; other site 262768001932 NEF interaction site [polypeptide binding]; other site 262768001933 SBD interface [polypeptide binding]; other site 262768001934 GrpE; Region: GrpE; pfam01025 262768001935 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 262768001936 dimer interface [polypeptide binding]; other site 262768001937 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 262768001938 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 262768001939 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001940 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001941 Walker A motif; other site 262768001942 ATP binding site [chemical binding]; other site 262768001943 Walker B motif; other site 262768001944 arginine finger; other site 262768001945 Peptidase family M41; Region: Peptidase_M41; pfam01434 262768001946 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 262768001947 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 262768001948 ATP binding site [chemical binding]; other site 262768001949 Mg++ binding site [ion binding]; other site 262768001950 motif III; other site 262768001951 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 262768001952 nucleotide binding region [chemical binding]; other site 262768001953 ATP-binding site [chemical binding]; other site 262768001954 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 262768001955 RNA binding site [nucleotide binding]; other site 262768001956 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001957 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 262768001958 Walker B motif; other site 262768001959 recA bacterial DNA recombination protein; Region: RecA; cl17211 262768001960 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 262768001961 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 262768001962 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 262768001963 Malic enzyme, N-terminal domain; Region: malic; pfam00390 262768001964 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 262768001965 putative NAD(P) binding site [chemical binding]; other site 262768001966 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 262768001967 potential frameshift: common BLAST hit: gi|116617508|ref|YP_817879.1| glycosidase 262768001968 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 262768001969 active site 262768001970 catalytic site [active] 262768001971 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 262768001972 Integrase core domain; Region: rve; pfam00665 262768001973 Integrase core domain; Region: rve_3; cl15866 262768001974 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 262768001975 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 262768001976 dimer interface [polypeptide binding]; other site 262768001977 ssDNA binding site [nucleotide binding]; other site 262768001978 tetramer (dimer of dimers) interface [polypeptide binding]; other site 262768001979 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 262768001980 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 262768001981 Walker A motif; other site 262768001982 ATP binding site [chemical binding]; other site 262768001983 Walker B motif; other site 262768001984 arginine finger; other site 262768001985 Family description; Region: UvrD_C_2; pfam13538 262768001986 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 262768001987 Propanediol utilisation protein PduL; Region: PduL; pfam06130 262768001988 Propanediol utilisation protein PduL; Region: PduL; pfam06130 262768001989 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 262768001990 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 262768001991 Zn2+ binding site [ion binding]; other site 262768001992 Mg2+ binding site [ion binding]; other site 262768001993 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 262768001994 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 262768001995 regulatory protein SpoVG; Reviewed; Region: PRK13259 262768001996 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 262768001997 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 262768001998 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 262768001999 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 262768002000 MraW methylase family; Region: Methyltransf_5; cl17771 262768002001 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 262768002002 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 262768002003 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 262768002004 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 262768002005 catalytic site [active] 262768002006 G-X2-G-X-G-K; other site 262768002007 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 262768002008 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 262768002009 HIGH motif; other site 262768002010 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 262768002011 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 262768002012 active site 262768002013 KMSKS motif; other site 262768002014 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 262768002015 tRNA binding surface [nucleotide binding]; other site 262768002016 acyl carrier protein; Provisional; Region: acpP; PRK00982 262768002017 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 262768002018 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 262768002019 oligomer interface [polypeptide binding]; other site 262768002020 active site 262768002021 metal binding site [ion binding]; metal-binding site 262768002022 50S ribosomal protein L20/unknown domain fusion protein; Provisional; Region: PRK14537 262768002023 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 262768002024 23S rRNA binding site [nucleotide binding]; other site 262768002025 L21 binding site [polypeptide binding]; other site 262768002026 L13 binding site [polypeptide binding]; other site 262768002027 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 262768002028 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 262768002029 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 262768002030 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 262768002031 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 262768002032 dimer interface [polypeptide binding]; other site 262768002033 active site 262768002034 motif 1; other site 262768002035 motif 2; other site 262768002036 motif 3; other site 262768002037 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 262768002038 DHH family; Region: DHH; pfam01368 262768002039 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 262768002040 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 262768002041 trmE is a tRNA modification GTPase; Region: trmE; cd04164 262768002042 G1 box; other site 262768002043 GTP/Mg2+ binding site [chemical binding]; other site 262768002044 Switch I region; other site 262768002045 G2 box; other site 262768002046 Switch II region; other site 262768002047 G3 box; other site 262768002048 G4 box; other site 262768002049 G5 box; other site 262768002050 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 262768002051 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 262768002052 DHH family; Region: DHH; pfam01368 262768002053 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 262768002054 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 262768002055 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 262768002056 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768002057 dimer interface [polypeptide binding]; other site 262768002058 conserved gate region; other site 262768002059 putative PBP binding loops; other site 262768002060 ABC-ATPase subunit interface; other site 262768002061 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 262768002062 dimer interface [polypeptide binding]; other site 262768002063 conserved gate region; other site 262768002064 putative PBP binding loops; other site 262768002065 ABC-ATPase subunit interface; other site 262768002066 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 262768002067 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 262768002068 Walker A/P-loop; other site 262768002069 ATP binding site [chemical binding]; other site 262768002070 Q-loop/lid; other site 262768002071 ABC transporter signature motif; other site 262768002072 Walker B; other site 262768002073 D-loop; other site 262768002074 H-loop/switch region; other site 262768002075 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 262768002076 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 262768002077 putative dimer interface [polypeptide binding]; other site 262768002078 putative anticodon binding site; other site 262768002079 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 262768002080 homodimer interface [polypeptide binding]; other site 262768002081 motif 1; other site 262768002082 motif 2; other site 262768002083 active site 262768002084 motif 3; other site