Structure of PDB 8wdk Chain V Binding Site BS01

Receptor Information
>8wdk Chain V (length=155) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PRPVLRSVNSREPSQVIFCNRSPRVVLPVWLNFDGEPQPYPTLPPGTGRR
IHSYRGHLWLFRDAGTHDGLLVNQTELFVPSLNVDGQPIFANITLPVYTL
KERCLQVVRSLVKPENYRRLDIVRSLYEDLEDHPNVQKDLERLTQERIAH
QRMGD
Ligand information
Ligand IDW6U
InChIInChI=1S/C55H70N12O7S/c1-8-23-66-51(71)42-33-57-53(62-49(42)67(66)45-13-11-12-44(60-45)55(6,7)73)59-39-18-20-40(21-19-39)64-27-25-63(26-28-64)24-9-10-29-74-30-22-46(69)61-48(54(3,4)5)52(72)65-34-41(68)31-43(65)50(70)56-32-37-14-16-38(17-15-37)47-36(2)58-35-75-47/h8,11-21,33,35,41,43,48,68,73H,1,9-10,22-32,34H2,2-7H3,(H,56,70)(H,61,69)(H,57,59,62)/t41-,43+,48-/m1/s1
InChIKeyQQLAKZIDPLGLSV-VZUPZQALSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7Cc1c(scn1)c2ccc(cc2)CNC(=O)[C@@H]3C[C@H](CN3C(=O)[C@H](C(C)(C)C)NC(=O)CCOCCCCN4CCN(CC4)c5ccc(cc5)Nc6ncc7c(n6)N(N(C7=O)CC=C)c8cccc(n8)C(C)(C)O)O
CACTVS 3.385Cc1ncsc1c2ccc(CNC(=O)[CH]3C[CH](O)CN3C(=O)[CH](NC(=O)CCOCCCCN4CCN(CC4)c5ccc(Nc6ncc7C(=O)N(CC=C)N(c8cccc(n8)C(C)(C)O)c7n6)cc5)C(C)(C)C)cc2
OpenEye OEToolkits 2.0.7Cc1c(scn1)c2ccc(cc2)CNC(=O)C3CC(CN3C(=O)C(C(C)(C)C)NC(=O)CCOCCCCN4CCN(CC4)c5ccc(cc5)Nc6ncc7c(n6)N(N(C7=O)CC=C)c8cccc(n8)C(C)(C)O)O
CACTVS 3.385Cc1ncsc1c2ccc(CNC(=O)[C@@H]3C[C@@H](O)CN3C(=O)[C@@H](NC(=O)CCOCCCCN4CCN(CC4)c5ccc(Nc6ncc7C(=O)N(CC=C)N(c8cccc(n8)C(C)(C)O)c7n6)cc5)C(C)(C)C)cc2
FormulaC55 H70 N12 O7 S
Name(2S,4R)-1-[(2S)-3,3-dimethyl-2-[3-[4-[4-[4-[[3-oxidanylidene-1-[6-(2-oxidanylpropan-2-yl)pyridin-2-yl]-2-prop-2-enyl-pyrazolo[3,4-d]pyrimidin-6-yl]amino]phenyl]piperazin-1-yl]butoxy]propanoylamino]butanoyl]-N-[[4-(4-methyl-1,3-thiazol-5-yl)phenyl]methyl]-4-oxidanyl-pyrrolidine-2-carboxamide
ChEMBL
DrugBank
ZINC
PDB chain8wdk Chain V Residue 301 [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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PDB8wdk Structure of Cul2-VCB-Protac-Wee1 complex at 3.6 Angstrom resolution.
Resolution3.64 Å
Binding residue
(original residue number in PDB)
R69 W88 F91 Y98 P99 R107 I109 H110 S111 Y112 H115
Binding residue
(residue number reindexed from 1)
R11 W30 F33 Y40 P41 R49 I51 H52 S53 Y54 H57
Annotation score1
External links
PDB RCSB:8wdk, PDBe:8wdk, PDBj:8wdk
PDBsum8wdk
PubMed
UniProtP40337|VHL_HUMAN von Hippel-Lindau disease tumor suppressor (Gene Name=VHL)

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