Microscopic theory of protein folding rates. I. Fine structure of the free energy profile and folding routes from a variational approach

A microscopic theory of the free energy barriers and folding routes for minimally frustrated proteins is presented, greatly expanding on the presentation of the variational approach outlined previously [J. J. Portman, S. Takada, and P. G. Wolynes, Phys. Rev. Lett. 81, 5237 (1998)]. We choose the λ-repressor protein as an illustrative example and focus on how the polymer chain statistics influence free energy profiles and partially ordered ensembles of structures. In particular, we investigate the role of chain stiffness on the free energy profile and folding routes. We evaluate the applicability of simpler approximations in which the conformations of the protein molecule along the folding route are restricted to have residues that are either entirely folded or unfolded in contiguous stretches. We find that the folding routes obtained from only one contiguous folded region corresponds to a chain with a much greater persistence length than appropriate for natural protein chains, while the folding route obta...

• Publication year

  2000

• Venue

  Journal of Chemical Physics

• Publication date

  2000-08-30

• Fields of study

  Biology, Physics, Chemistry

• Identifiers
  DOI 10.1063/1.1334662arXiv cond-mat/0008454
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar

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