Structure of PDB 6ynk Chain B Binding Site BS01

Receptor Information
>6ynk Chain B (length=164) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GTSKLKYVLQDARFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRS
ARSVILIFSVRESGKFQGFARLSSESHHGGSPIHWVLPAGMSAKMLGGVF
KIDWICRRELPFTKSAHLTNPWNEHKPVKIGRDGQEIELECGTQLCLLFP
PDESIDLYQVIHKM
Ligand information
Ligand IDP0K
InChIInChI=1S/C11H13N3O3/c1-14(7-9-3-2-4-17-9)6-8-5-10(15)13-11(16)12-8/h2-4H,5-7H2,1H3,(H,13,15,16)
InChIKeyPWXNLVGSEBBXAV-UHFFFAOYSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7CN(Cc1ccco1)CC2=NC(=O)NC(=O)C2
CACTVS 3.385CN(CC1=NC(=O)NC(=O)C1)Cc2occc2
FormulaC11 H13 N3 O3
Name6-[[furan-2-ylmethyl(methyl)amino]methyl]-5~{H}-pyrimidine-2,4-dione
ChEMBL
DrugBank
ZINC
PDB chain6ynk Chain B Residue 601 [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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PDB6ynk Structure-based design of ligands of the m6A-RNA reader YTHDC1
Resolution1.3 Å
Binding residue
(original residue number in PDB)		K361 N363 W377 S378 T379 R404 W428 M434 L439 D476
Binding residue
(residue number reindexed from 1)		K18 N20 W34 S35 T36 R61 W85 M91 L96 D133
Annotation score1
Enzymatic activity
Enzyme Commision number ?
Gene Ontology

View graph for
Molecular Function
External links
PDB RCSB:6ynk, PDBe:6ynk, PDBj:6ynk
PDBsum6ynk
PubMed
UniProtQ96MU7|YTDC1_HUMAN YTH domain-containing protein 1 (Gene Name=YTHDC1)

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