Universality classes in folding times of proteins

Details Universality classes in folding times of proteins Universality classes in folding times of proteins

2002-07-22

arxiv.org/abs/cond-mat/0207510v1

Biophys. J. 84, 475-488 (2003)

Physics

Condensed Matter

Statistical Mechanics

22 pages, 21 figures, to appear in Biophys J

Scientific paper

10.1016/S0006-3495(03)74867-X

Molecular dynamics simulations in simplified models allow one to study the scaling properties of folding times for many proteins together under a controlled setting. We consider three variants of the Go models with different contact potentials and demonstrate scaling described by power laws and no correlation with the relative contact order parameter. We demonstrate existence of at least three kinetic universality classes which are correlated with the types of structure: the alpha-, alpha--beta-, and beta- proteins have the scaling exponents of about 1.7, 2.5, and 3.2 respectively. The three classes merge into one when the contact range is truncated at a 'reasonable' value. We elucidate the role of the potential associated with the chirality of a protein.

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