Literature DB >> 23901973

Boundary based on exchange symmetry theory for multilevel simulations. I. Basic theory.

Motoyuki Shiga1, Marco Masia.   

Abstract

In this paper, we lay the foundations for a new method that allows multilevel simulations of a diffusive system, i.e., a system where a flux of particles through the boundaries might disrupt the primary region. The method is based on the use of flexible restraints that maintain the separation between inner and outer particles. It is shown that, by introducing a bias potential that accounts for the exchange symmetry of the system, the correct statistical distribution is preserved. Using a toy model consisting of non-interacting particles in an asymmetric potential well, we prove that the method is formally exact, and that it could be simplified by considering only up to a couple of particle exchanges without a loss of accuracy. A real-world test is then made by considering a hybrid MM(∗)/MM calculation of cesium ion in water. In this case, the single exchange approximation is sound enough that the results superimpose to the exact solutions. Potential applications of this method to many different hybrid QM/MM systems are discussed, as well as its limitations and strengths in comparison to existing approaches.

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Year:  2013        PMID: 23901973     DOI: 10.1063/1.4816629

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  3 in total

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Journal:  J Chem Theory Comput       Date:  2021-02-16       Impact factor: 6.006

Review 2.  Review on the QM/MM Methodologies and Their Application to Metalloproteins.

Authors:  Christina Eleftheria Tzeliou; Markella Aliki Mermigki; Demeter Tzeli
Journal:  Molecules       Date:  2022-04-20       Impact factor: 4.927

3.  Improvement of Performance, Stability and Continuity by Modified Size-Consistent Multipartitioning Quantum Mechanical/Molecular Mechanical Method.

Authors:  Hiroshi C Watanabe
Journal:  Molecules       Date:  2018-07-27       Impact factor: 4.411

  3 in total

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