Quantum Mechanical Methods for Biomolecular Simulations

  • Kin-Yiu Wong
  • Lingchun Song
  • Wangshen Xie
  • Dan T. Major
  • Yen-Lin Lin
  • Alessandro Cembran
  • Jiali Gao

Abstract

We discuss quantum mechanical methods for the description of the potential energy surface and for the treatment of nuclear quantum effects in chemical and biological applications. Two novel electronic structure methods are described, including an electronic structure-based explicit polarization (X-Pol) force field and an effective Hamiltonian molecular orbital and valence bond (EH-MOVB) theory. In addition, we present two path integral techniques to treat nuclear quantum effects, which include an analytical pathintegral method based on Kleinert’s variational perturbation theory, and integrated pathintegral free-energy perturbation and umbrella sampling (PI-FEP/UM) simulation. Studies have shown that quantum mechanics can be applied to biocatalytic systems in a variety of ways and scales. We hope that the methods presented in this article can further expand the scope of quantum mechanical applications to biomolecular systems

Keywords

Polarizable force field Molecular orbital and valence bond theory Nuclear quantum effects Path integral Kleinert’s variational perturbation theory Isotope effects 

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Copyright information

© Springer Science+Business Media B.V. 2009

Authors and Affiliations

  • Kin-Yiu Wong
    • 1
  • Lingchun Song
    • 1
  • Wangshen Xie
    • 1
  • Dan T. Major
    • 1
  • Yen-Lin Lin
    • 1
  • Alessandro Cembran
    • 1
  • Jiali Gao
    • 1
  1. 1.Department of Chemistry, Digital Technology Center, and Minnesota Supercomputing InstituteUniversity of MinnesotaUSA

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