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Accelerating QM/MM Free Energy Computations via Intramolecular Force Matching.
Hudson, Phillip S; Boresch, Stefan; Rogers, David M; Woodcock, H Lee.
Afiliación
  • Hudson PS; Department of Chemistry , University of South Florida , 4202 East Fowler Avenue, CHE205 , Tampa , Florida 33620-5250 , United States.
  • Boresch S; Laboratory of Computational Biology , National Institutes of Health, National Heart, Lung and Blood Institute , 12 South Drive Rm 3053 , Bethesda , Maryland 20892-5690 , United States.
  • Rogers DM; Faculty of Chemistry, Department of Computational Biological Chemistry , University of Vienna , Währingerstraße 17 , A-1090 Vienna , Austria.
  • Woodcock HL; Department of Chemistry , University of South Florida , 4202 East Fowler Avenue, CHE205 , Tampa , Florida 33620-5250 , United States.
J Chem Theory Comput ; 14(12): 6327-6335, 2018 Dec 11.
Article en En | MEDLINE | ID: mdl-30300543
ABSTRACT
The calculation of free energy differences between levels of theory has numerous potential pitfalls. Chief among them is the lack of overlap, i.e., ensembles generated at one level of theory (e.g., "low") not being good approximations of ensembles at the other (e.g., "high"). Numerous strategies have been devised to mitigate this issue. However, the most straightforward approach is to ensure that the "low" level ensemble more closely resembles that of the "high". Ideally, this is done without increasing computational cost. Herein, we demonstrate that by reparametrizing classical intramolecular potentials to reproduce high level forces (i.e., force matching) configurational overlap between a "low" (i.e., classical) and "high" (i.e., quantum) level can be significantly improved. This procedure is validated on two test cases and results in vastly improved convergence of free energy simulations.

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Idioma: En Revista: J Chem Theory Comput Año: 2018 Tipo del documento: Article País de afiliación: Estados Unidos

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Idioma: En Revista: J Chem Theory Comput Año: 2018 Tipo del documento: Article País de afiliación: Estados Unidos