Metadynamic sampling of the free-energy landscapes of proteins coupled with a Monte Carlo algorithm.
Metadynamics is a powerful computational tool to obtain the free-energy landscape of complex systems. The Monte Carlo algorithm has proven useful to calculate thermodynamic quantities associated with simplified models of proteins, and thus to gain an ever-increasing understanding on the general principles underlying the mechanism of protein folding. We show that it is possible to couple metadynamics and Monte Carlo algorithms to obtain the free energy of model proteins in a way which is computationally very economical.
Marini
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Department of Physics, University of Milan, via Celoria 16, 20133 Milan, Italy. franz.marini@mi.infn.it
Camilloni
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Broglia
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Tiana
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D000465:Algorithms; D008958:Models, Molecular; D009010:Monte Carlo Method; D011506:Proteins / Q000737:chemistry* / Q000235:genetics; D013499:Surface Properties; D013816:Thermodynamics
D011506:Proteins