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The Effect of Using a Twin-Range Cutoff Scheme for Nonbonded Interactions: Implications for Force-Field Parametrization?
[Image: see text] Recently, concerns have been voiced regarding the validity of the GROMOS force fields, being parametrized using a twin-range cutoff scheme, in which longer ranged nonbonded forces and energies are updated less frequently than shorter ranged ones. Here we demonstrate that the influe...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
American
Chemical Society
2020
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7558304/ https://www.ncbi.nlm.nih.gov/pubmed/32813524 http://dx.doi.org/10.1021/acs.jctc.0c00509 |
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author | Diem, Matthias Oostenbrink, Chris |
author_facet | Diem, Matthias Oostenbrink, Chris |
author_sort | Diem, Matthias |
collection | PubMed |
description | [Image: see text] Recently, concerns have been voiced regarding the validity of the GROMOS force fields, being parametrized using a twin-range cutoff scheme, in which longer ranged nonbonded forces and energies are updated less frequently than shorter ranged ones. Here we demonstrate that the influence of such a scheme on the thermodynamic, structural, and dynamic properties used in the parametrization of the GROMOS force fields is minor. We find root-mean-square differences of maximally 0.5 kJ/mol for the solvation free energy and heat of vaporization and of maximally 0.4% for the density. Slightly larger differences are observed when switching from a group-based to an atom-based cutoff scheme. In cases where the twin-range cutoff scheme does result in minor differences compared to a single-range cutoff these are well within the deviation from the experimentally measured values. |
format | Online Article Text |
id | pubmed-7558304 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | American
Chemical Society |
record_format | MEDLINE/PubMed |
spelling | pubmed-75583042020-10-15 The Effect of Using a Twin-Range Cutoff Scheme for Nonbonded Interactions: Implications for Force-Field Parametrization? Diem, Matthias Oostenbrink, Chris J Chem Theory Comput [Image: see text] Recently, concerns have been voiced regarding the validity of the GROMOS force fields, being parametrized using a twin-range cutoff scheme, in which longer ranged nonbonded forces and energies are updated less frequently than shorter ranged ones. Here we demonstrate that the influence of such a scheme on the thermodynamic, structural, and dynamic properties used in the parametrization of the GROMOS force fields is minor. We find root-mean-square differences of maximally 0.5 kJ/mol for the solvation free energy and heat of vaporization and of maximally 0.4% for the density. Slightly larger differences are observed when switching from a group-based to an atom-based cutoff scheme. In cases where the twin-range cutoff scheme does result in minor differences compared to a single-range cutoff these are well within the deviation from the experimentally measured values. American Chemical Society 2020-08-19 2020-10-13 /pmc/articles/PMC7558304/ /pubmed/32813524 http://dx.doi.org/10.1021/acs.jctc.0c00509 Text en This is an open access article published under a Creative Commons Attribution (CC-BY) License (http://pubs.acs.org/page/policy/authorchoice_ccby_termsofuse.html) , which permits unrestricted use, distribution and reproduction in any medium, provided the author and source are cited. |
spellingShingle | Diem, Matthias Oostenbrink, Chris The Effect of Using a Twin-Range Cutoff Scheme for Nonbonded Interactions: Implications for Force-Field Parametrization? |
title | The Effect of Using a Twin-Range Cutoff Scheme for
Nonbonded Interactions: Implications for Force-Field Parametrization? |
title_full | The Effect of Using a Twin-Range Cutoff Scheme for
Nonbonded Interactions: Implications for Force-Field Parametrization? |
title_fullStr | The Effect of Using a Twin-Range Cutoff Scheme for
Nonbonded Interactions: Implications for Force-Field Parametrization? |
title_full_unstemmed | The Effect of Using a Twin-Range Cutoff Scheme for
Nonbonded Interactions: Implications for Force-Field Parametrization? |
title_short | The Effect of Using a Twin-Range Cutoff Scheme for
Nonbonded Interactions: Implications for Force-Field Parametrization? |
title_sort | effect of using a twin-range cutoff scheme for
nonbonded interactions: implications for force-field parametrization? |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7558304/ https://www.ncbi.nlm.nih.gov/pubmed/32813524 http://dx.doi.org/10.1021/acs.jctc.0c00509 |
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