Literature DB >> 22466097

Liquid water simulations with the density fragment interaction approach.

Xiangqian Hu1, Yingdi Jin, Xiancheng Zeng, Hao Hu, Weitao Yang.   

Abstract

We reformulate the density fragment interaction (DFI) approach [Fujimoto and Yang, J. Chem. Phys., 2008, 129, 054102.] to achieve linear-scaling quantum mechanical calculations for large molecular systems. Two key approximations are developed to improve the efficiency of the DFI approach and thus enable the calculations for large molecules: the electrostatic interactions between fragments are computed efficiently by means of polarizable electrostatic-potential-fitted atomic charges; and frozen fragment pseudopotentials, similar to the effective fragment potentials that can be fitted from interactions between small molecules, are employed to take into account the Pauli repulsion effect among fragments. Our reformulated and parallelized DFI method demonstrates excellent parallel performance based on the benchmarks for the system of 256 water molecules. Molecular dynamics simulations for the structural properties of liquid water also show a qualitatively good agreement with experimental measurements including the heat capacity, binding energy per water molecule, and the radial distribution functions of atomic pairs of O-O, O-H, and H-H. With this approach, large-scale quantum mechanical simulations for water and other liquids become feasible.

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Year:  2012        PMID: 22466097      PMCID: PMC3856182          DOI: 10.1039/c2cp23714h

Source DB:  PubMed          Journal:  Phys Chem Chem Phys        ISSN: 1463-9076            Impact factor:   3.676


  24 in total

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Journal:  Annu Rev Phys Chem       Date:  1995       Impact factor: 12.703

6.  A second generation distributed point polarizable water model.

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Journal:  J Chem Phys       Date:  2010-01-07       Impact factor: 3.488

7.  Systematic fragmentation method and the effective fragment potential: an efficient method for capturing molecular energies.

Authors:  Jonathan M Mullin; Luke B Roskop; Spencer R Pruitt; Michael A Collins; Mark S Gordon
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Review 8.  Quantum chemistry of macromolecules and solids.

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Journal:  Phys Chem Chem Phys       Date:  2009-07-27       Impact factor: 3.676

9.  A combined effective fragment potential-fragment molecular orbital method. II. Analytic gradient and application to the geometry optimization of solvated tetraglycine and chignolin.

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Journal:  J Chem Phys       Date:  2011-01-21       Impact factor: 3.488

10.  Reconsidering an analytical gradient expression within a divide-and-conquer self-consistent field approach: exact formula and its approximate treatment.

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Journal:  J Chem Phys       Date:  2011-01-21       Impact factor: 3.488

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  4 in total

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Journal:  J Chem Theory Comput       Date:  2013-03-12       Impact factor: 6.006

4.  Accurate Quantum Mechanical/Molecular Mechanical Calculations of Reduction Potentials in Azurin Variants.

Authors:  Lin Shen; Xiancheng Zeng; Hao Hu; Xiangqian Hu; Weitao Yang
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  4 in total

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