2W26 image
Deposition Date 2008-10-24
Release Date 2008-11-11
Last Version Date 2024-11-06
Entry Detail
PDB ID:
2W26
Keywords:
Title:
Factor Xa in complex with BAY59-7939
Biological Source:
Source Organism:
HOMO SAPIENS (Taxon ID: 9606)
Method Details:
Experimental Method:
Resolution:
2.08 Å
R-Value Free:
0.25
R-Value Work:
0.21
R-Value Observed:
0.21
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:ACTIVATED FACTOR XA HEAVY CHAIN
Gene (Uniprot):F10
Chain IDs:A
Chain Length:234
Number of Molecules:1
Biological Source:HOMO SAPIENS
Polymer Type:polypeptide(L)
Molecule:ACTIVATED FACTOR XA HEAVY CHAIN
Gene (Uniprot):F10
Chain IDs:B
Chain Length:51
Number of Molecules:1
Biological Source:HOMO SAPIENS
Primary Citation
Discovery of the Novel Antithrombotic Agent 5-Chloro-N-({(5S)-2-Oxo-3- [4-(3-Oxomorpholin-4-Yl)Phenyl]-1,3-Oxazolidin-5-Yl}Methyl)Thiophene-2- Carboxamide (Bay 59-7939): An Oral, Direct Factor Xa Inhibitor.
J.Med.Chem. 48 5900 5908 (2005)
PMID: 16161994 DOI: 10.1021/JM050101D

Abstact

Despite recent progress in antithrombotic therapy, there is still an unmet medical need for safe and orally available anticoagulants. The coagulation enzyme Factor Xa (FXa) is a particularly promising target, and recent efforts in this field have focused on the identification of small-molecule inhibitors with good oral bioavailability. We identified oxazolidinone derivatives as a new class of potent FXa inhibitors. Lead optimization led to the discovery of BAY 59-7939 (5), a highly potent and selective, direct FXa inhibitor with excellent in vivo antithrombotic activity. The X-ray crystal structure of 5 in complex with human FXa clarified the binding mode and the stringent requirements for high affinity. The interaction of the neutral ligand chlorothiophene in the S1 subsite allows for the combination of good oral bioavailability and high potency for nonbasic 5. Compound 5 is currently under clinical development for the prevention and treatment of thromboembolic diseases.

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