Literature DB >> 16833679

Simulation of liquid water using semiempirical Hamiltonians and the divide and conquer approach.

G Monard1, M I Bernal-Uruchurtu, A van der Vaart, K M Merz, M F Ruiz-López.   

Abstract

This work examines the ability of semiempirical methods to describe the structure of liquid water. Particularly, the standard AM1 and PM3 methods together with recently developed PM3-PIF and PM3-MAIS parametrizations have been considered. We perform molecular dynamics simulations for a system consisting of 64 or 216 water molecules in a periodic cubic box. The whole system is described quantum mechanically. Calculations with 64 molecules have been carried out using standard SCF techniques whereas calculations with 216 molecules have been done using the divide and conquer approach. This method has also been used in one simulation case with 64 molecules for test purposes. Within this scope, the molecular dynamics program ROAR have been coupled with a linear scaling semiempirical code (DivCon) implemented in a parallel MPI version. The predicted liquid water structure using either AM1 or PM3 is shown to be very poor due to well-known limitations of these methods describing hydrogen bonds. In contrast, PM3-PIF and PM3-MAIS calculations lead to results in reasonably good agreement with experimental data. The best results for the heat of vaporization are obtained with the PM3-PIF method. The average induced dipole moment of the water molecule in the liquid is underestimated by all semiempirical techniques, which seems to be related to the NDDO approximation and to the use of minimal basis sets. A brief discussion on charge-transfer effects in liquid water is also presented.

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Year:  2005        PMID: 16833679     DOI: 10.1021/jp0459099

Source DB:  PubMed          Journal:  J Phys Chem A        ISSN: 1089-5639            Impact factor:   2.781


  7 in total

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Journal:  J Chem Phys       Date:  2008-08-07       Impact factor: 3.488

Review 2.  Semiempirical Quantum Mechanical Methods for Noncovalent Interactions for Chemical and Biochemical Applications.

Authors:  Anders S Christensen; Tomáš Kubař; Qiang Cui; Marcus Elstner
Journal:  Chem Rev       Date:  2016-04-13       Impact factor: 60.622

3.  Quantum mechanical force fields for condensed phase molecular simulations.

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4.  Molecular simulations of RNA 2'-O-transesterification reaction models in solution.

Authors:  Brian K Radak; Michael E Harris; Darrin M York
Journal:  J Phys Chem B       Date:  2012-12-24       Impact factor: 2.991

5.  A variational linear-scaling framework to build practical, efficient next-generation orbital-based quantum force fields.

Authors:  Timothy J Giese; Haoyuan Chen; Thakshila Dissanayake; George M Giambaşu; Hugh Heldenbrand; Ming Huang; Erich R Kuechler; Tai-Sung Lee; Maria T Panteva; Brian K Radak; Darrin M York
Journal:  J Chem Theory Comput       Date:  2013-03-12       Impact factor: 6.006

6.  Doubly Polarized QM/MM with Machine Learning Chaperone Polarizability.

Authors:  Bryant Kim; Yihan Shao; Jingzhi Pu
Journal:  J Chem Theory Comput       Date:  2021-11-01       Impact factor: 6.578

Review 7.  Enhanced semiempirical QM methods for biomolecular interactions.

Authors:  Nusret Duygu Yilmazer; Martin Korth
Journal:  Comput Struct Biotechnol J       Date:  2015-02-28       Impact factor: 7.271

  7 in total

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