PDB Entry (3o1g)
PDB ID: 3o1g Resolution: 1.65 Å Exp. Method: X-RAY DIFFRACTION
PMID: 20843687 DOI: 10.1016/j.bmcl.2010.08.101
Protein
Protein Name: Cathepsin K
Uniprot ID/ACC: P43235 (CATK_HUMAN) Organism: Homo sapiens (Human)
Gene Symbol: CTSK Gene ID: 1513
Protein Class: HYDROLASE
Ligand
Ligand Name:   N-benzyl-3-(2-cyano-6-propylpyrimidin-4-yl)-N-[2-(dimethylamino)ethyl]-5-(trifluoromethyl)benzamide
Canonical SMILES:   CCCc1cc(nc(n1)C#N)-c1cc(cc(c1)C(F)(F)F)C(=O)N(CCN(C)C)Cc1ccccc1
Standard InChI:   InChI=1S/C27H28F3N5O/c1-4-8-23-16-24(33-25(17-31)32-23)20-13-21(15-22(14-20)27(28,29)30)26(36)35(12-11-34(2)3)18-19-9-6-5-7-10-19/h5-7,9-10,13-16H,4,8,11-12,18H2,1-3H3
HET Code:   O75 PubChem:   49867423
DrugBank:   - ChEMBL:   CHEMBL1234898
Molecular Formula:   C27H28F3N5O Mol. Weight:   495.2246 logP:   5.19058
HBD:   0 HBA:   5
#Rotatable Bonds:   9 TPSA:   73.12
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Nucleophilic Addition to a Triple Bond CYS 25 A 16.24 13.12 Nitrile
Binding Affinity
Database Name Value
PDBBind IC50 : <1 nM , IC50 : 1 nM
BindingDB IC50 : <1 nM