Combination of the replica-exchange Monte Carlo method and the reference interaction site model theory for simulating a peptide molecule in aqueous solution

Ayori Mitsutake, Masabiro Kinoshita, Yuko Okamoto, Fumio Hirata

Research output: Contribution to journalArticle

22 Citations (Scopus)

Abstract

This article reports the first attempt to combine the replica-exchange Monte Carlo method and the reference interaction site model (RISM) theory for simulating a peptide molecule in aqueous solution. The energy function is the sum of the conformational energy and the solvation free energy. The solvation free energy for a fixed conformation of the peptide molecule is calculated using the RISM theory. The replica-exchange method is modified so that the dependence of the energy function on the temperature can be incorporated. The effectiveness of the combined approach is demonstrated for Met-enkephalin in water. It is argued that the number of replicas required for a peptide molecule immersed in water is drastically reduced by employing the combined approach. Solvation properties and free energy surfaces of Met-enkephalin in water are discussed.

Original languageEnglish
Pages (from-to)19002-19012
Number of pages11
JournalJournal of Physical Chemistry B
Volume108
Issue number49
DOIs
Publication statusPublished - 2004 Dec 9

    Fingerprint

ASJC Scopus subject areas

  • Physical and Theoretical Chemistry
  • Surfaces, Coatings and Films
  • Materials Chemistry

Cite this