PDB Entry (3n4c)
PDB ID: 3n4c Resolution: 1.9 Å Exp. Method: X-RAY DIFFRACTION
PMID: 20598883 DOI: 10.1016/j.bmcl.2010.06.072
Protein
Protein Name: Cathepsin S
Uniprot ID/ACC: P25774 (CATS_HUMAN) Organism: Homo sapiens (Human)
Gene Symbol: CTSS Gene ID: 1520
Protein Class: HYDROLASE
Ligand
Ligand Name:   (E)-1-(1-methyl-6-{4-[3-(4-methylpiperazin-1-yl)propoxy]-3-(trifluoromethyl)phenyl}-1H-imidazo[4,5-c]pyridin-4-yl)methanimine
Canonical SMILES:   CN1CCN(CCCOc2ccc(cc2C(F)(F)F)-c2cc3n(C)cnc3c(n2)C#N)CC1
Standard InChI:   InChI=1S/C23H25F3N6O/c1-30-7-9-32(10-8-30)6-3-11-33-21-5-4-16(12-17(21)23(24,25)26)18-13-20-22(19(14-27)29-18)28-15-31(20)2/h4-5,12-13,15H,3,6-11H2,1-2H3
HET Code:   EF3 PubChem:   25204335
DrugBank:   - ChEMBL:   CHEMBL1209144
Molecular Formula:   C23H25F3N6O Mol. Weight:   458.2042 logP:   3.54208
HBD:   0 HBA:   7
#Rotatable Bonds:   6 TPSA:   70.21
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Nucleophilic Addition to a Triple Bond CYS 25 A 13.9 11.57 Nitrile
Binding Affinity
Database Name Value
PDBBind IC50 : 9.5 nM