Rigidity analysis of HIV-1 protease

Details Rigidity analysis of HIV-1 protease Rigidity analysis of HIV-1 protease

2011-01-24

arxiv.org/abs/1101.4538v1

J. Phys.: Conf. Ser. 286, 012006, (2011)

Biology

Quantitative Biology

Biomolecules

4 pages, 3 figures. Conference proceedings for CMMP conference 2010 which was held at the University of Warwick

Scientific paper

10.1088/1742-6596/286/1/012006

We present a rigidity analysis on a large number of X-ray crystal structures of the enzyme HIV-1 protease using the 'pebble game' algorithm of the software FIRST. We find that although the rigidity profile remains similar across a comprehensive set of high resolution structures, the profile changes significantly in the presence of an inhibitor. Our study shows that the action of the inhibitors is to restrict the flexibility of the beta-hairpin flaps which allow access to the active site. The results are discussed in the context of full molecular dynamics simulations as well as data from NMR experiments.

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