PDB Entry (4dmy)
PDB ID: 4dmy Resolution: 1.63 Å Exp. Method: X-RAY DIFFRACTION
PMID: 22742641 DOI: 10.1021/jm3007257
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:   (1R,2R)-N-(1-cyanocyclopropyl)-2-[(8-fluoro-1,3,4,5-tetrahydro-2H-pyrido[4,3-b]indol-2-yl)carbonyl]cyclohexanecarboxamide
Canonical SMILES:   Fc(c1)ccc(c12)[nH]c3c2CN(CC3)C(=O)[C@@H]4CCCC[C@H]4C(=O)NC5(C#N)CC5
Standard InChI:   InChI=1S/C23H25FN4O2/c24-14-5-6-19-17(11-14)18-12-28(10-7-20(18)26-19)22(30)16-4-2-1-3-15(16)21(29)27-23(13-25)8-9-23/h5-6,11,15-16,26H,1-4,7-10,12H2,(H,27,29)/t15-,16-/m1/s1
HET Code:   0LC PubChem:   25142042
DrugBank:   - ChEMBL:   CHEMBL2164678
Molecular Formula:   C23H25FN4O2 Mol. Weight:   408.19617 logP:   3.17048
HBD:   2 HBA:   3
#Rotatable Bonds:   3 TPSA:   88.99
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Nucleophilic Addition to a Triple Bond CYS 25 A 16.17 11.63 Nitrile
Binding Affinity
Database Name Value
PDBBind IC50 : <1 nM