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Inhibition of HIV-1 protease: the rigidity perspective
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Heal, J. W., Jiménez Roldán, J. E. (José Emilio), Wells, Stephen A., Freedman, R. B. and Roemer, Rudolf A.. (2012) Inhibition of HIV-1 protease: the rigidity perspective. Bioinformatics, Vol.28 (No.3). pp. 350-357. ISSN 1367-4803
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Official URL: http://dx.doi.org/10.1093/bioinformatics/btr683
Abstract
Motivation: HIV-1 protease is a key drug target due to its role in the life cycle of the HIV-1 virus. Rigidity analysis using the software First is a computationally inexpensive method for inferring functional information from protein crystal structures. We evaluate the rigidity of 206 high-resolution (2 angstrom or better) X-ray crystal structures of HIV-1 protease and compare the effects of different inhibitors binding to the enzyme. Results: Inhibitor binding has little effect on the overall rigidity of the protein homodimer, including the rigidity of the active site. The principal effect of inhibitor binding on rigidity is to constrain the flexibility of the beta-hairpin flaps, which move to allow access to the active site of the enzyme. We show that commercially available antiviral drugs which target HIV-1 protease can be divided into two classes, those which significantly affect flap rigidity and those which do not. The non-peptidic inhibitor tipranavir is distinctive in its consistently strong effect on flap rigidity.
| Item Type: | Journal Article |
|---|---|
| Subjects: | Q Science > Q Science (General) |
| Divisions: | Faculty of Science > Computer Science Faculty of Science > Life Sciences (2010- ) Faculty of Science > Molecular Organisation and Assembly in Cells (MOAC) Faculty of Science > Physics |
| Journal or Publication Title: | Bioinformatics |
| Publisher: | Oxford University Press |
| ISSN: | 1367-4803 |
| Date: | 2012 |
| Volume: | Vol.28 |
| Number: | No.3 |
| Number of Pages: | 8 |
| Page Range: | pp. 350-357 |
| Identification Number: | 10.1093/bioinformatics/btr683 |
| Status: | Peer Reviewed |
| Publication Status: | Published |
| Access rights to Published version: | Restricted or Subscription Access |
| Funder: | EPSRC , Leverhulme Trust (LT) |
| Grant number: | MOAC DTC EP/F500378/1 (EPSRC) |
| URI: | http://wrap.warwick.ac.uk/id/eprint/42688 |
Data sourced from Thomson Reuters' Web of Knowledge
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