Free-energy-driven folding and thermodynamics of the 67-residue protein GS-α3W-A large-scale Monte Carlo study
Document Type
Article
Publication Date
8-2009
Department
Department of Physics
Abstract
Utilizing the computational power of a few thousand processors on a BlueGene/P, we have explored the folding mechanism of the 67-residue protein GS-α3W. Results from our large-scale simulation indicate a diffusion-collision mechanism for folding. However, the lower-than-expected frequency of native-like configurations at physiological temperatures indicates shortcomings of our energy function. Our results suggest that computational studies of large proteins call for redevelopment and reparametrization of force fields that in turn require extensive simulations only possible with the newly available supercomputers with computing powers reaching the petaflop range.
Publication Title
Journal of Computational Chemistry
Recommended Citation
Meinke, J.,
&
Hansmann, U.
(2009).
Free-energy-driven folding and thermodynamics of the 67-residue protein GS-α3W-A large-scale Monte Carlo study.
Journal of Computational Chemistry,
30(11), 1642-1648.
http://doi.org/10.1002/jcc.21321
Retrieved from: https://digitalcommons.mtu.edu/michigantech-p/3698
Publisher's Statement
© 2009 Wiley Periodicals, Inc. Publisher’s version of record: https://doi.org/10.1002/jcc.21321