Literature DB >> 29935522

Anisotropic reaction field correction for long-range electrostatic interactions in molecular dynamics simulations.

Dominik Sidler1, Simon Frasch1, Michael Cristòfol-Clough1, Sereina Riniker1.   

Abstract

Reaction-field (RF) methods have been extensively used in molecular dynamics simulations to efficiently compute long-range electrostatic interactions. They assume a continuous dielectric medium outside a certain cutoff, which has shown to be a reasonable approximation in many cases. However, lattice sum or fast multipole methods are nowadays often used instead, which treat long-range interactions explicitly but may introduce different artefacts. In the following work, the major issue of RFs is addressed, i.e., their inability to account for inhomogeneity even in heterogenous environments (e.g., membranes or protein binding pockets). By using a first-order Laplace series expansion of the dielectric permittivity on the cutoff sphere, local anisotropic effects can be described in a simple form. It is shown that the resulting boundary-value problem cannot be solved analytically, but instead a well-behaved approximative anisotropic reaction field (ARF) is introduced, which preserves coordinate invariance and approaches the standard RF solution for homogeneous systems. The comparison of RF to the state-of-the-art particle-particle particle-mesh (P3M) method shows a difference in the orientation of molecules close to the interface between two different dielectrics (water/chloroform). It was found that the ARF leads to a correction of the orientational distribution toward the P3M reference for planar and spherical interfaces.

Entities:  

Year:  2018        PMID: 29935522     DOI: 10.1063/1.5007132

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


  2 in total

1.  Density artefacts at interfaces caused by multiple time-step effects in molecular dynamics simulations.

Authors:  Dominik Sidler; Marc Lehner; Simon Frasch; Michael Cristófol-Clough; Sereina Riniker
Journal:  F1000Res       Date:  2018-11-05

2.  Correction Schemes for Absolute Binding Free Energies Involving Lipid Bilayers.

Authors:  Zhiyi Wu; Philip C Biggin
Journal:  J Chem Theory Comput       Date:  2022-03-22       Impact factor: 6.578

  2 in total

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