Structure of PDB 6m12 Chain b Binding Site BS02

Receptor Information
>6m12 Chain b (length=684) Species: 9823 (Sus scrofa) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
EEMLTQAVQEADIEQVRQLLERADANFQEEEWGWSPLHSAVQMDSEDLVA
LLLKHGADPCLRKRNGATPFIIAGITGNVRLLQLLLPNVEDVNECDVNGF
TAFMEAAVYGRVEALRFLYENGADVNMHRKTKQDQERIRKGGATALMDAA
EKGHVGVVTILLHAMKAEVDARDNMGRNALVYALLNPDDGKAKAITRLLL
DHGADVNVRGEGSKTPLILAVERKNLDLVQMLLEQEQIEVNDTDREGKTA
LLLAVELRLEEIAKLLCHRGASTNCGDLVAIARRNYDSDLVKFLRLHKAG
EDFRPPAENWKPQSSRWGEALKHLHRIWRPMIGKLKIFIDEEYKIADTAE
GGIYLGLYEDQEVAVKRFSEGSTRGQQEVSCLQSSRANDNVVTFYGSESD
GSCLHVCLALCEYTLQEHLANHRGDAVPNEEDESARNILSSLFKAIGELH
RSGYSHQDLQPQNILIDSKNGTFLADFDKSIKWAEDPQKIKRDLEALGLL
VLYVVKKGDISFETLKNQSFEEVIQGSPDEETRDLIHHLFHPGDNVEDRL
SSLLAHPFFWSWESRYRTLRDVGNESDIKTRNQNSRILQLLQPGTLSTSF
AQWTTKIDSFVMEEMNAYNLYQDTLGDLLKFIRNLGEHINEQKNKKMKSI
IGEPSQYFQEKFPDLVMYVYTKLQNTEYMKHFPK
Ligand information
Ligand ID25L
InChIInChI=1S/C30H40N15O25P5/c31-22-13-25(37-4-34-22)43(7-40-13)28-19(49)16(46)10(64-28)1-61-72(53,54)67-20-17(47)11(65-29(20)44-8-41-14-23(32)35-5-38-26(14)44)2-62-73(55,56)68-21-18(48)12(3-63-74(57,58)70-75(59,60)69-71(50,51)52)66-30(21)45-9-42-15-24(33)36-6-39-27(15)45/h4-12,16-21,28-30,46-49H,1-3H2,(H,53,54)(H,55,56)(H,57,58)(H,59,60)(H2,31,34,37)(H2,32,35,38)(H2,33,36,39)(H2,50,51,52)/t10-,11-,12-,16-,17-,18-,19-,20-,21-,28-,29-,30-/m1/s1
InChIKeyRTAGLZBJCCVJET-UQTMIEBXSA-N
SMILES
SoftwareSMILES
CACTVS 3.352Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[C@@H]4[C@H](O)[C@@H](CO[P](O)(=O)O[C@@H]5[C@H](O)[C@@H](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)O[C@H]5n6cnc7c(N)ncnc67)O[C@H]4n8cnc9c(N)ncnc89)[C@@H](O)[C@H]3O
OpenEye OEToolkits 1.7.0c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OC4C(C(OC4n5cnc6c5ncnc6N)COP(=O)(O)OC7C(C(OC7n8cnc9c8ncnc9N)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)O)O)O)O)N
OpenEye OEToolkits 1.7.0c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)O[C@@H]4[C@@H]([C@H](O[C@H]4n5cnc6c5ncnc6N)CO[P@](=O)(O)O[C@@H]7[C@@H]([C@H](O[C@H]7n8cnc9c8ncnc9N)CO[P@](=O)(O)O[P@@](=O)(O)OP(=O)(O)O)O)O)O)O)N
CACTVS 3.352Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[CH]4[CH](O)[CH](CO[P](O)(=O)O[CH]5[CH](O)[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)O[CH]5n6cnc7c(N)ncnc67)O[CH]4n8cnc9c(N)ncnc89)[CH](O)[CH]3O
FormulaC30 H40 N15 O25 P5
Name[[(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-4-[[(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-4-[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-3-hydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-3-hydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] phosphono hydrogen phosphate;
2'-5'-oligoadenylate trimer
ChEMBLCHEMBL404038
DrugBank
ZINC
PDB chain6m12 Chain b Residue 801 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6m12 Sunitinib inhibits RNase L by destabilizing its active dimer conformation.
Resolution2.4 Å
Binding residue
(original residue number in PDB)
W56 W58 S63 Q66 K87 N89 N122 F124 E129 R153
Binding residue
(residue number reindexed from 1)
W32 W34 S39 Q42 K63 N65 N98 F100 E105 R129
Annotation score1
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0004540 RNA nuclease activity
GO:0004672 protein kinase activity
GO:0005524 ATP binding
GO:0046872 metal ion binding
Biological Process
GO:0006397 mRNA processing
GO:0006468 protein phosphorylation

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Molecular Function

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Biological Process
External links
PDB RCSB:6m12, PDBe:6m12, PDBj:6m12
PDBsum6m12
PubMed32830849
UniProtA5H025

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