Literature DB >> 17887861

Cutoff radius effect of isotropic periodic sum method for transport coefficients of Lennard-Jones liquid.

Kazuaki Takahashi1, Kenji Yasuoka, Tetsu Narumi.   

Abstract

Molecular dynamics simulations of a Lennard-Jones (LJ) liquid were applied to compare the isotropic periodic sum (IPS) method [X. Wu and B. R. Brooks, J. Chem. Phys. 122, 044107 (2005)], which can reduce the calculation cost of long-range interactions, such as the Lennard-Jones and Coulombic ones, with the cutoff method for the transport coefficients which includes the self-diffusion coefficient, bulk viscosity, and thermal conductivity. The self-diffusion coefficient, bulk viscosity, and thermal conductivity were estimated with reasonable accuracy if the cutoff distance of the LJ potential for the IPS method was greater than 3sigma. The IPS method is an effective technique for estimating the transport coefficients of the Lennard-Jones liquid in a homogeneous system.

Mesh:

Year:  2007        PMID: 17887861     DOI: 10.1063/1.2775929

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


  6 in total

Review 1.  CHARMM: the biomolecular simulation program.

Authors:  B R Brooks; C L Brooks; A D Mackerell; L Nilsson; R J Petrella; B Roux; Y Won; G Archontis; C Bartels; S Boresch; A Caflisch; L Caves; Q Cui; A R Dinner; M Feig; S Fischer; J Gao; M Hodoscek; W Im; K Kuczera; T Lazaridis; J Ma; V Ovchinnikov; E Paci; R W Pastor; C B Post; J Z Pu; M Schaefer; B Tidor; R M Venable; H L Woodcock; X Wu; W Yang; D M York; M Karplus
Journal:  J Comput Chem       Date:  2009-07-30       Impact factor: 3.376

2.  The homogeneity condition: A simple way to derive isotropic periodic sum potentials for efficient calculation of long-range interactions in molecular simulation.

Authors:  Xiongwu Wu; Bernard R Brooks
Journal:  J Chem Phys       Date:  2019-06-07       Impact factor: 3.488

3.  Application of Molecular Dynamics Simulations in Molecular Property Prediction I: Density and Heat of Vaporization.

Authors:  Junmei Wang; Hou Tingjun
Journal:  J Chem Theory Comput       Date:  2011-07-12       Impact factor: 6.006

4.  Critical test of isotropic periodic sum techniques with group-based cut-off schemes.

Authors:  Takuma Nozawa; Kenji Yasuoka; Kazuaki Z Takahashi
Journal:  Sci Rep       Date:  2018-03-08       Impact factor: 4.379

5.  A Virtual Mixture Approach to the Study of Multistate Equilibrium: Application to Constant pH Simulation in Explicit Water.

Authors:  Xiongwu Wu; Bernard R Brooks
Journal:  PLoS Comput Biol       Date:  2015-10-27       Impact factor: 4.475

6.  A fast and accurate computational method for the linear-combination-based isotropic periodic sum.

Authors:  Kazuaki Z Takahashi; Takuma Nozawa; Kenji Yasuoka
Journal:  Sci Rep       Date:  2018-08-08       Impact factor: 4.379

  6 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.