PDB Entry (6px5)
PDB ID: 6px5 Resolution: 2.4 Å Exp. Method: X-RAY DIFFRACTION
PMID: 31444378 DOI: 10.1038/s41598-019-48839-1
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:   D-phenylalanyl-N-[(2S,3S)-6-{[amino(iminio)methyl]amino}-1-chloro-2-oxohexan-3-yl]-L-prolinamide
Canonical SMILES:   N[C@H](Cc1ccccc1)C(=O)N1CCC[C@H]1C(=O)N[C@@H](CCCNC(N)=N)C(=O)CCl
Standard InChI:   InChI=1S/C21H31ClN6O3/c22-13-18(29)16(8-4-10-26-21(24)25)27-19(30)17-9-5-11-28(17)20(31)15(23)12-14-6-2-1-3-7-14/h1-3,6-7,15-17H,4-5,8-13,23H2,(H,27,30)(H4,24,25,26)/t15-,16+,17+/m1/s1
HET Code:   0G6 PubChem:   5311176
DrugBank:   - ChEMBL:   CHEMBL307440
Molecular Formula:   C21H31ClN6O3 Mol. Weight:   450.21463 logP:   0.10337
HBD:   5 HBA:   5
#Rotatable Bonds:   11 TPSA:   154.4
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Nucleophilic Aliphatic Subsititution HIS 57 B 36.52 5.45 Halomethyl Carbonyl
Binding Affinity
-