PDB Entry (1dx5)
PDB ID: 1dx5 Resolution: 2.3 Å Exp. Method: X-RAY DIFFRACTION
PMID: 10761923 DOI: 10.1038/35006683
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:   L-alpha-glutamyl-N-{(1S)-4-{[amino(iminio)methyl]amino}-1-[(1S)-2-chloro-1-oxoethyl]butyl}glycinamide
Canonical SMILES:   N[C@@H](CCC(O)=O)C(=O)NCC(=O)N[C@@H](CCCNC(N)=N)C(=O)CCl
Standard InChI:   InChI=1S/C14H25ClN6O5/c15-6-10(22)9(2-1-5-19-14(17)18)21-11(23)7-20-13(26)8(16)3-4-12(24)25/h8-9H,1-7,16H2,(H,20,26)(H,21,23)(H,24,25)(H4,17,18,19)/t8-,9-/m0/s1
HET Code:   0GJ PubChem:   10271857
DrugBank:   - ChEMBL:   CHEMBL1767120
Molecular Formula:   C14H25ClN6O5 Mol. Weight:   392.1575 logP:   -2.14933
HBD:   7 HBA:   6
#Rotatable Bonds:   13 TPSA:   200.49
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Composite Reaction HIS 57 M 31.13 5.52 Halomethyl Carbonyl
Composite Reaction SER 195 M 13.32 - Halomethyl Carbonyl
Binding Affinity
-