Structure of PDB 6e3a Chain A Binding Site BS02

Receptor Information
>6e3a Chain A (length=180) Species: 203119 (Acetivibrio thermocellus ATCC 27405) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
LIDYSKLSKEVAYALRHAPWEYGLELDAEGWVDINQLLSSLHECEKWKKV
SEHDLHVMIEKSDKKRYEISNGKIRALYGHSIPQRIIKEQKCPPEVLYHG
TARRFVKSIKEKGLQPQGRQYVHLSADVETALQVGKRRDIKPVLLIVNAL
EAWSEGIKFYLGNDKVWLADAIPSKYIRFE
Ligand information
Ligand IDHQG
InChIInChI=1S/C15H24N5O17P3/c16-12-7-13(18-3-17-12)20(4-19-7)14-10(23)8(21)5(34-14)1-32-39(28,29)37-40(30,31)33-2-6-9(22)11(24)15(35-6)36-38(25,26)27/h3-6,8-11,14-15,21-24H,1-2H2,(H,28,29)(H,30,31)(H2,16,17,18)(H2,25,26,27)/t5-,6-,8-,9-,10-,11-,14-,15-/m1/s1
InChIKeyCUNFRFHBHMFVPH-KEOHHSTQSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.6c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OC[C@@H]4[C@H]([C@H]([C@H](O4)OP(=O)(O)O)O)O)O)O)N
CACTVS 3.385Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]4O[CH](O[P](O)(O)=O)[CH](O)[CH]4O)[CH](O)[CH]3O
ACDLabs 12.01C2(C(C(C(COP(O)(=O)OP(O)(=O)OCC1C(C(C(OP(=O)(O)O)O1)O)O)O2)O)O)n3c4c(nc3)c(ncn4)N
OpenEye OEToolkits 2.0.6c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(C(C(O4)OP(=O)(O)O)O)O)O)O)N
CACTVS 3.385Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)OC[C@H]4O[C@H](O[P](O)(O)=O)[C@H](O)[C@@H]4O)[C@@H](O)[C@H]3O
FormulaC15 H24 N5 O17 P3
Name[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{R},5~{R})-3,4-bis(oxidanyl)-5-phosphonooxy-oxolan-2-yl]methyl hydrogen phosphate
ChEMBL
DrugBank
ZINCZINC000096015919
PDB chain6e3a Chain A Residue 202 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6e3a Structure of tRNA splicing enzyme Tpt1 illuminates the mechanism of RNA 2'-PO4recognition and ADP-ribosylation.
Resolution1.4 Å
Binding residue
(original residue number in PDB)
R18 K66 R68 Y80 H101 T103 F107 S110 I111 L116 Q117 Q119 R121 V136 R139 R140
Binding residue
(residue number reindexed from 1)
R16 K64 R66 Y78 H99 T101 F105 S108 I109 L114 Q115 Q117 R119 V134 R137 R138
Annotation score3
Enzymatic activity
Enzyme Commision number 2.7.1.-
Gene Ontology
Molecular Function
GO:0000215 tRNA 2'-phosphotransferase activity
GO:0003950 NAD+-protein poly-ADP-ribosyltransferase activity
GO:0016740 transferase activity
GO:0016772 transferase activity, transferring phosphorus-containing groups
Biological Process
GO:0006388 tRNA splicing, via endonucleolytic cleavage and ligation

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Molecular Function

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Biological Process
External links
PDB RCSB:6e3a, PDBe:6e3a, PDBj:6e3a
PDBsum6e3a
PubMed30644400
UniProtA3DJX6|KPTA_ACET2 Probable RNA 2'-phosphotransferase (Gene Name=kptA)

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