Kinetics of the Wako-Saito-Munoz-Eaton Model of Protein Folding

Details Kinetics of the Wako-Saito-Munoz-Eaton Model of Protein Folding Kinetics of the Wako-Saito-Munoz-Eaton Model of Protein Folding

2006-06-29

arxiv.org/abs/cond-mat/0606774v1

Phys. Rev. Lett. 97, 068106 (2006)

Physics

Condensed Matter

Statistical Mechanics

4 pages, 4 figures

Scientific paper

10.1103/PhysRevLett.97.068106

We consider a simplified model of protein folding, with binary degrees of freedom, whose equilibrium thermodynamics is exactly solvable. Based on this exact solution, the kinetics is studied in the framework of a local equilibrium approach, for which we prove that (i) the free energy decreases with time, (ii) the exact equilibrium is recovered in the infinite time limit, and (iii) the folding rate is an upper bound of the exact one. The kinetics is compared to the exact one for a small peptide and to Monte Carlo simulations for a longer protein, then rates are studied for a real protein and a model structure.

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