PDB Entry (6bkx)
PDB ID: 6bkx Resolution: 1.65 Å Exp. Method: X-RAY DIFFRACTION
PMID: 30004704 DOI: 10.1021/acs.jmedchem.8b00305
Protein
Protein Name: Isocitrate dehydrogenase [NADP] cytoplasmic
Uniprot ID/ACC: O75874 (IDHC_HUMAN) Organism: Homo sapiens (Human)
Gene Symbol: IDH1 Gene ID: 3417
Protein Class: OXIDOREDUCTASE
Ligand
Ligand Name:   (6aS,7S,10aR)-7,10a-dimethyl-8-oxo-2-(phenylamino)-5H,6H,6aH,7H,8H,10aH-cyclohexa[h]quinazoline-9-carbonitrile
Canonical SMILES:   N#CC(=C1)C(=O)[C@@H](C)[C@@H]([C@]12C)CCc3c2nc(nc3)Nc4ccccc4
Standard InChI:   InChI=1S/C21H20N4O/c1-13-17-9-8-14-12-23-20(24-16-6-4-3-5-7-16)25-19(14)21(17,2)10-15(11-22)18(13)26/h3-7,10,12-13,17H,8-9H2,1-2H3,(H,23,24,25)/t13-,17-,21-/m0/s1
HET Code:   DWP PubChem:   155549401
DrugBank:   - ChEMBL:   CHEMBL4548727
Molecular Formula:   C21H20N4O Mol. Weight:   344.1637 logP:   3.70908
HBD:   1 HBA:   5
#Rotatable Bonds:   2 TPSA:   78.67
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Michael Addition HIS 315 A 31.4 1.89 Alpha-Cyanovinyl Carbonyl
Binding Affinity
Database Name Value
PDBBind IC50 : 410 nM