Literature DB >> 22247701

Pairwise long-range compensation for strongly ionic systems.

Seyit Kale1, Judith Herzfeld.   

Abstract

We propose a pairwise compensation method for long-range electrostatics, as an alternative to traditional infinite lattice sums. The approach represents the third generation in a series beginning with the shifted potential corresponding to counterions surrounding a cutoff sphere. That simple charge compensation scheme resulted in pairwise potentials that are continuous at the cutoff, but forces that are not. A second-generation approach modified both the potential and the force such that both are continuous at the cutoff. Here we introduce another layer of softening such that the derivative of the force is also continuous at the cutoff. In strongly ionic liquids, this extension removes structural artifacts associated with the earlier pairwise compensation schemes, and provides results that compare well with Ewald sums.

Entities:  

Year:  2011        PMID: 22247701      PMCID: PMC3254088          DOI: 10.1021/ct200392u

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  13 in total

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Authors:  Steven W Rick
Journal:  J Chem Phys       Date:  2004-04-01       Impact factor: 3.488

3.  A modified TIP3P water potential for simulation with Ewald summation.

Authors:  Daniel J Price; Charles L Brooks
Journal:  J Chem Phys       Date:  2004-11-22       Impact factor: 3.488

4.  Cutoff size does strongly influence molecular dynamics results on solvated polypeptides.

Authors:  H Schreiber; O Steinhauser
Journal:  Biochemistry       Date:  1992-06-30       Impact factor: 3.162

5.  Is the Ewald summation still necessary? Pairwise alternatives to the accepted standard for long-range electrostatics.

Authors:  Christopher J Fennell; J Daniel Gezelter
Journal:  J Chem Phys       Date:  2006-06-21       Impact factor: 3.488

6.  Canonical sampling through velocity rescaling.

Authors:  Giovanni Bussi; Davide Donadio; Michele Parrinello
Journal:  J Chem Phys       Date:  2007-01-07       Impact factor: 3.488

7.  VMD: visual molecular dynamics.

Authors:  W Humphrey; A Dalke; K Schulten
Journal:  J Mol Graph       Date:  1996-02

8.  Lewis-inspired representation of dissociable water in clusters and Grotthuss chains.

Authors:  Seyit Kale; Judith Herzfeld; Stacy Dai; Michael Blank
Journal:  J Biol Phys       Date:  2011-06-04       Impact factor: 1.365

9.  All-atom empirical potential for molecular modeling and dynamics studies of proteins.

Authors:  A D MacKerell; D Bashford; M Bellott; R L Dunbrack; J D Evanseck; M J Field; S Fischer; J Gao; H Guo; S Ha; D Joseph-McCarthy; L Kuchnir; K Kuczera; F T Lau; C Mattos; S Michnick; T Ngo; D T Nguyen; B Prodhom; W E Reiher; B Roux; M Schlenkrich; J C Smith; R Stote; J Straub; M Watanabe; J Wiórkiewicz-Kuczera; D Yin; M Karplus
Journal:  J Phys Chem B       Date:  1998-04-30       Impact factor: 2.991

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  3 in total

1.  Natural polarizability and flexibility via explicit valency: the case of water.

Authors:  Seyit Kale; Judith Herzfeld
Journal:  J Chem Phys       Date:  2012-02-28       Impact factor: 3.488

2.  Treating electrostatics with Wolf summation in combined quantum mechanical and molecular mechanical simulations.

Authors:  Pedro Ojeda-May; Jingzhi Pu
Journal:  J Chem Phys       Date:  2015-11-07       Impact factor: 3.488

3.  Toward the correction of effective electrostatic forces in explicit-solvent molecular dynamics simulations: restraints on solvent-generated electrostatic potential and solvent polarization.

Authors:  Maria M Reif; Chris Oostenbrink
Journal:  Theor Chem Acc       Date:  2015-01-10       Impact factor: 1.702

  3 in total

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