Multibody Terms in Protein Coarse-Grained Models: A Top-Down Perspective

J Phys Chem B. 2023 Aug 10;127(31):6920-6927. doi: 10.1021/acs.jpcb.3c04493. Epub 2023 Jul 27.

Abstract

Coarse-grained models allow computational investigation of biomolecular processes occurring on long time and length scales, intractable with atomistic simulation. Traditionally, many coarse-grained models rely mostly on pairwise interaction potentials. However, the decimation of degrees of freedom should, in principle, lead to a complex many-body effective interaction potential. In this work, we use experimental data on mutant stability to parametrize coarse-grained models for two proteins with and without many-body terms. We demonstrate that many-body terms are necessary to reproduce quantitatively the effects of point mutations on protein stability, particularly to implicitly take into account the effect of the solvent.

Publication types

  • Research Support, U.S. Gov't, Non-P.H.S.
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Computer Simulation
  • Proteins*
  • Solvents

Substances

  • Proteins
  • Solvents