Download MendeleyDoes a Fast Nuclear Magnetic Resonance Spectroscopy- and X-Ray Crystallography Hybrid Approach Provide Reliable Structural Information of Ligand-Protein Complexes? a Case Study of Metalloproteinases.
Isaksson, J., Nystrom, S., Derbyshire, D.J., Wallberg, H., Agback, T., Kovacs, H., Bertini, I., Felli, I.C.(2009) J Med Chem 52: 1712
- PubMed: 19239231
- DOI: https://doi.org/10.1021/jm801388q
- Primary Citation of Related Structures:
2W0D - PubMed Abstract:
A human matrix metalloproteinase (MMP) hydroxamic acid inhibitor (CGS27023A) was cross-docked into 15 MMP-12, MMP-13, MMP-9, and MMP-1 cocrystal structures. The aim was to validate a fast protocol for ligand binding conformation elucidation and to probe the feasibility of using inhibitor-protein NMR contacts to dock an inhibitor into related MMP crystal structures. Such an approach avoids full NMR structure elucidation, saving both spectrometer- and analysis time. We report here that for the studied MMPs, one can obtain docking results well within 1 A compared to the corresponding reference X-ray structure, using backbone amide contacts only. From the perspective of the pharmaceutical industry, these results are relevant for the binding studies of inhibitor series to a common target and have the potential advantage of obtaining information on protein-inhibitor complexes that are difficult to crystallize.
Organizational Affiliation:
Medivir AB, PO Box 1086, SE-141 22 Huddinge, Sweden. johan.isaksson@medivir.se
