PDB Entry (1ad8)
PDB ID: 1ad8 Resolution: 2.0 Å Exp. Method: X-RAY DIFFRACTION
PMID: 9033393 DOI: 10.1021/bi9622231
Protein
Protein Name: Prothrombin
Uniprot ID/ACC: P00734 (THRB_HUMAN) Organism: Homo sapiens (Human)
Gene Symbol: F2 Gene ID: 2147
Protein Class: HYDROLASE
Ligand
Ligand Name:   (2S)-1-[(2R)-2-(methylamino)-3-phenyl-propanoyl]-N-[(2S)-4,4,5,5,5-pentafluoro-1-(1H-indol-3-yl)-3-oxo-pentan-2-yl]pyrrolidine-2-carboxamide
Canonical SMILES:   CN[C@H](Cc1ccccc1)C(=O)N1CCC[C@H]1C(=O)N[C@@H](Cc1c[nH]c2ccccc12)C(=O)C(F)(F)C(F)(F)F
Standard InChI:   InChI=1S/C28H29F5N4O3/c1-34-22(14-17-8-3-2-4-9-17)26(40)37-13-7-12-23(37)25(39)36-21(24(38)27(29,30)28(31,32)33)15-18-16-35-20-11-6-5-10-19(18)20/h2-6,8-11,16,21-23,34-35H,7,12-15H2,1H3,(H,36,39)/t21-,22+,23-/m0/s1
HET Code:   MDL PubChem:   5288794
DrugBank:   - ChEMBL:   CHEMBL1234249
Molecular Formula:   C28H29F5N4O3 Mol. Weight:   564.216 logP:   3.7836
HBD:   3 HBA:   4
#Rotatable Bonds:   10 TPSA:   94.3
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Hemi(thio)acetalization SER 195 H 23.26 - Ketone
Binding Affinity
Database Name Value
PDBBind Ki : 250 nM