Literature DB >> 20730778

The quest for the best nonpolarizable water model from the adaptive force matching method.

Omololu Akin-Ojo1, Feng Wang.   

Abstract

The recently introduced adaptive force matching (AFM) method is used to develop a significantly improved pair-wise nonpolarizable potential for water. A rigid version of the potential is also presented to enable larger time steps for biological simulations. In this work, it is demonstrated that the AFM method can be used to systematically assess the importance of each functional term during the construction of a force field. For a water potential, it is established that a single off-atom charge center (M) in the plane of water outperforms two out-of-plane charge sites for reproducing intermolecular forces. The four-site pair-wise nonpolarizable force field developed in this work rivals some of the most sophisticated polarizable models in terms of reproducing accurate ab initio forces. The force fields are parameterized to perform best in the temperature range from 0 to 40°C. Equilibrium and dynamical properties calculated with the flexible and rigid force fields are in good agreement with experimental results. For the flexible model, the agreement improves when path integral simulation is performed. These force fields provide high-quality results at a very low computational cost and are thus well suited to atomistic scale biological simulations. The AFM method provides a mechanism for selecting important terms in force field expressions and is a very promising tool for producing accurate force fields in condensed phases.
Copyright © 2010 Wiley Periodicals, Inc.

Entities:  

Year:  2010        PMID: 20730778     DOI: 10.1002/jcc.21634

Source DB:  PubMed          Journal:  J Comput Chem        ISSN: 0192-8651            Impact factor:   3.376


  24 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.  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

3.  The liquid-vapor equilibria of TIP4P/2005 and BLYPSP-4F water models determined through direct simulations of the liquid-vapor interface.

Authors:  Hongyi Hu; Feng Wang
Journal:  J Chem Phys       Date:  2015-06-07       Impact factor: 3.488

4.  Accurate Prediction of the Hydration Free Energies of 20 Salts through Adaptive Force Matching and the Proper Comparison with Experimental References.

Authors:  Jicun Li; Feng Wang
Journal:  J Phys Chem B       Date:  2017-06-29       Impact factor: 2.991

5.  Alchemical Binding Free Energy Calculations in AMBER20: Advances and Best Practices for Drug Discovery.

Authors:  Tai-Sung Lee; Bryce K Allen; Timothy J Giese; Zhenyu Guo; Pengfei Li; Charles Lin; T Dwight McGee; David A Pearlman; Brian K Radak; Yujun Tao; Hsu-Chun Tsai; Huafeng Xu; Woody Sherman; Darrin M York
Journal:  J Chem Inf Model       Date:  2020-09-16       Impact factor: 4.956

6.  Liquid-liquid transition in supercooled water suggested by microsecond simulations.

Authors:  Yaping Li; Jicun Li; Feng Wang
Journal:  Proc Natl Acad Sci U S A       Date:  2013-07-08       Impact factor: 11.205

7.  Development of reactive force fields using ab initio molecular dynamics simulation minimally biased to experimental data.

Authors:  Chen Chen; Christopher Arntsen; Gregory A Voth
Journal:  J Chem Phys       Date:  2017-10-28       Impact factor: 3.488

8.  The strengths and limitations of effective centroid force models explored by studying isotopic effects in liquid water.

Authors:  Ying Yuan; Jicun Li; Xin-Zheng Li; Feng Wang
Journal:  J Chem Phys       Date:  2018-05-14       Impact factor: 3.488

9.  Systematic improvement of a classical molecular model of water.

Authors:  Lee-Ping Wang; Teresa Head-Gordon; Jay W Ponder; Pengyu Ren; John D Chodera; Peter K Eastman; Todd J Martinez; Vijay S Pande
Journal:  J Phys Chem B       Date:  2013-08-14       Impact factor: 2.991

10.  Development of a Robust Indirect Approach for MM → QM Free Energy Calculations That Combines Force-Matched Reference Potential and Bennett's Acceptance Ratio Methods.

Authors:  Timothy J Giese; Darrin M York
Journal:  J Chem Theory Comput       Date:  2019-09-17       Impact factor: 6.006

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.