Literature DB >> 15268120

Effective force fields for condensed phase systems from ab initio molecular dynamics simulation: a new method for force-matching.

Sergei Izvekov1, Michele Parrinello, Christian J Burnham, Gregory A Voth.   

Abstract

A novel least-squares fitting approach is presented to obtain classical force fields from trajectory and force databases produced by ab initio (e.g., Car-Parrinello) molecular dynamics (MD) simulations. The method was applied to derive effective nonpolarizable three-site force fields for liquid water at ambient conditions from Car-Parrinello MD simulations in the Becke-Lee-Yang-Parr approximation to the electronic density functional theory. The force-matching procedure includes a fit of short-ranged nonbonded forces, bonded forces, and atomic partial charges. The various parameterizations of the water force field differ by an enforced smooth cut-off applied to the short-ranged interaction term. These were obtained by fitting to the trajectory and force data produced by Car-Parrinello MD simulations of systems of 32 and 64 H(2)O molecules. The new water force fields were developed assuming both flexible or rigid molecular geometry. The simulated structural and self-diffusion properties of liquid water using the fitted force fields are in close agreement with those observed in the underlying Car-Parrinello MD simulations. The resulting empirical models compare to experiment much better than many conventional simple point charge (SPC) models. The fitted potential is also shown to combine well with more sophisticated intramolecular potentials. Importantly, the computational cost of the new models is comparable to that for SPC-like potentials.

Entities:  

Year:  2004        PMID: 15268120     DOI: 10.1063/1.1739396

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


  48 in total

1.  Pairwise-additive force fields for selected aqueous monovalent ions from adaptive force matching.

Authors:  Jicun Li; Feng Wang
Journal:  J Chem Phys       Date:  2015-11-21       Impact factor: 3.488

2.  Matching of additive and polarizable force fields for multiscale condensed phase simulations.

Authors:  Christopher M Baker; Robert B Best
Journal:  J Chem Theory Comput       Date:  2013-06-11       Impact factor: 6.006

3.  Assessing implicit models for nonpolar mean solvation forces: the importance of dispersion and volume terms.

Authors:  Jason A Wagoner; Nathan A Baker
Journal:  Proc Natl Acad Sci U S A       Date:  2006-05-18       Impact factor: 11.205

4.  Coarse-grained peptide modeling using a systematic multiscale approach.

Authors:  Jian Zhou; Ian F Thorpe; Sergey Izvekov; Gregory A Voth
Journal:  Biophys J       Date:  2007-03-30       Impact factor: 4.033

5.  The multiscale coarse-graining method. II. Numerical implementation for coarse-grained molecular models.

Authors:  W G Noid; Pu Liu; Yanting Wang; Jhih-Wei Chu; Gary S Ayton; Sergei Izvekov; Hans C Andersen; Gregory A Voth
Journal:  J Chem Phys       Date:  2008-06-28       Impact factor: 3.488

Review 6.  Modeling kinetics of subcellular disposition of chemicals.

Authors:  Stefan Balaz
Journal:  Chem Rev       Date:  2009-05       Impact factor: 60.622

7.  Surface Penetration without Enrichment: Simulations Show Ion Surface Propensities Consistent with Both Elevated Surface Tension and Surface Sensitive Spectroscopy.

Authors:  Jicun Li; Feng Wang
Journal:  J Phys Chem B       Date:  2019-08-13       Impact factor: 2.991

8.  Hybrid coarse-grained/atomistic model of "chitosan + carbon nanostructures" composites.

Authors:  Elena L Kossovich; Irina V Kirillova; Leonid Yu Kossovich; Roman A Safonov; Dmitriy V Ukrainskiy; Svetlana A Apshtein
Journal:  J Mol Model       Date:  2014-10-14       Impact factor: 1.810

Review 9.  SWINGER: a clustering algorithm for concurrent coupling of atomistic and supramolecular liquids.

Authors:  Julija Zavadlav; Siewert J Marrink; Matej Praprotnik
Journal:  Interface Focus       Date:  2019-04-19       Impact factor: 3.906

10.  Coarse-Grained Molecular Models of Water: A Review.

Authors:  Kevin R Hadley; Clare McCabe
Journal:  Mol Simul       Date:  2012-07-04       Impact factor: 2.178

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