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Force‐field parametrization based on radial and energy distribution functions
We propose a novel force‐field‐parametrization procedure that fits the parameters of potential functions in a manner that the pair distribution function (DF) of molecules derived from candidate parameters can reproduce the given target DF. Conventionally, approaches to minimize the difference betwee...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley & Sons, Inc.
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6790663/ https://www.ncbi.nlm.nih.gov/pubmed/31343749 http://dx.doi.org/10.1002/jcc.26035 |
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author | Chiba, Shuntaro Okuno, Yasushi Honma, Teruki Ikeguchi, Mitsunori |
author_facet | Chiba, Shuntaro Okuno, Yasushi Honma, Teruki Ikeguchi, Mitsunori |
author_sort | Chiba, Shuntaro |
collection | PubMed |
description | We propose a novel force‐field‐parametrization procedure that fits the parameters of potential functions in a manner that the pair distribution function (DF) of molecules derived from candidate parameters can reproduce the given target DF. Conventionally, approaches to minimize the difference between the candidate and target DFs employ radial DFs (RDF). RDF itself has been reported to be insufficient for uniquely identifying the parameters of a molecule. To overcome the weakness, we introduce energy DF (EDF) as a target DF, which describes the distribution of the pairwise energy of molecules. We found that the EDF responds more sensitively to a small perturbation in the pairwise potential parameters and provides better fitting accuracy compared to that of RDF. These findings provide valuable insights into a wide range of coarse graining methods, which determine parameters using information obtained from a higher‐level calculation than that of the developed force field. © 2019 The Authors. Journal of Computational Chemistry published by Wiley Periodicals, Inc. |
format | Online Article Text |
id | pubmed-6790663 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | John Wiley & Sons, Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-67906632019-10-18 Force‐field parametrization based on radial and energy distribution functions Chiba, Shuntaro Okuno, Yasushi Honma, Teruki Ikeguchi, Mitsunori J Comput Chem Full Papers We propose a novel force‐field‐parametrization procedure that fits the parameters of potential functions in a manner that the pair distribution function (DF) of molecules derived from candidate parameters can reproduce the given target DF. Conventionally, approaches to minimize the difference between the candidate and target DFs employ radial DFs (RDF). RDF itself has been reported to be insufficient for uniquely identifying the parameters of a molecule. To overcome the weakness, we introduce energy DF (EDF) as a target DF, which describes the distribution of the pairwise energy of molecules. We found that the EDF responds more sensitively to a small perturbation in the pairwise potential parameters and provides better fitting accuracy compared to that of RDF. These findings provide valuable insights into a wide range of coarse graining methods, which determine parameters using information obtained from a higher‐level calculation than that of the developed force field. © 2019 The Authors. Journal of Computational Chemistry published by Wiley Periodicals, Inc. John Wiley & Sons, Inc. 2019-07-25 2019-11-05 /pmc/articles/PMC6790663/ /pubmed/31343749 http://dx.doi.org/10.1002/jcc.26035 Text en © 2019 The Authors. Journal of Computational Chemistry published by Wiley Periodicals, Inc. This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Full Papers Chiba, Shuntaro Okuno, Yasushi Honma, Teruki Ikeguchi, Mitsunori Force‐field parametrization based on radial and energy distribution functions |
title | Force‐field parametrization based on radial and energy distribution functions |
title_full | Force‐field parametrization based on radial and energy distribution functions |
title_fullStr | Force‐field parametrization based on radial and energy distribution functions |
title_full_unstemmed | Force‐field parametrization based on radial and energy distribution functions |
title_short | Force‐field parametrization based on radial and energy distribution functions |
title_sort | force‐field parametrization based on radial and energy distribution functions |
topic | Full Papers |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6790663/ https://www.ncbi.nlm.nih.gov/pubmed/31343749 http://dx.doi.org/10.1002/jcc.26035 |
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