Characterization of Protein Folding by Dominant Reaction Pathways

Details Characterization of Protein Folding by Dominant Reaction Pathways Characterization of Protein Folding by Dominant Reaction Pathways

2008-06-23

arxiv.org/abs/0806.3734v1

Biology

Quantitative Biology

Biomolecules

14 pages, 11 figures

Scientific paper

We assess the reliability of the recently developed approach denominated Dominant Reaction Pathways (DRP) by studying the folding of a 16-residue beta-hairpin, within a coarse-grained Go-type model. We show that the DRP predictions are in quantitative agreement with the results of Molecular Dynamics simulations, performed in the same model. On the other hand, in the DRP approach, the computational difficulties associated to the decoupling of time scales are rigorously bypassed. The analysis of the important transition pathways supports a picture of the beta-hairpin folding in which the reaction is initiated by the collapse of the hydrophobic cluster.

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