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Parameterization and optimization of the menthol force field for molecular dynamics simulations
Menthol’s various biological properties render it a useful component for medical and cosmetological applications, while its three centers of asymmetry mean that it can be used in a range of organic reactions. Menthol-substituted ionic liquids (ILs) have been found to exhibit promising antimicrobial...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Springer Berlin Heidelberg
2016
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5014899/ https://www.ncbi.nlm.nih.gov/pubmed/27604277 http://dx.doi.org/10.1007/s00894-016-3082-1 |
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author | Jasik, Mateusz Szefczyk, Borys |
author_facet | Jasik, Mateusz Szefczyk, Borys |
author_sort | Jasik, Mateusz |
collection | PubMed |
description | Menthol’s various biological properties render it a useful component for medical and cosmetological applications, while its three centers of asymmetry mean that it can be used in a range of organic reactions. Menthol-substituted ionic liquids (ILs) have been found to exhibit promising antimicrobial and antielectrostatic properties, as well as being useful in organic catalysis and biochemical studies. However, so far, a force field designed and validated specifically for the menthol molecule has not been constructed. In the present work, the validation and optimization of force field parameters with regard to the ability to reproduce the macroscopic properties of menthol is presented. The set of optimized potentials for liquid simulations all atom (OPLS-AA) compatible parameters was tested and carefully tuned. The refinement of parameters included fitting of partial atomic charges, optimization of Lennard-Jones parameters, and recalculation of the dihedral angle parameters needed to reproduce quantum energy profiles. To validate the force field, a variety of physicochemical properties were calculated for liquid menthol. Both thermodynamic and kinetic properties were taken into account, including density, surface tension, enthalpy of vaporization, and shear viscosity. The obtained force field was proven to accurately reproduce the properties of the investigated compound while being fully compatible with the OPLS-AA force field. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s00894-016-3082-1) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-5014899 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2016 |
publisher | Springer Berlin Heidelberg |
record_format | MEDLINE/PubMed |
spelling | pubmed-50148992016-09-19 Parameterization and optimization of the menthol force field for molecular dynamics simulations Jasik, Mateusz Szefczyk, Borys J Mol Model Original Paper Menthol’s various biological properties render it a useful component for medical and cosmetological applications, while its three centers of asymmetry mean that it can be used in a range of organic reactions. Menthol-substituted ionic liquids (ILs) have been found to exhibit promising antimicrobial and antielectrostatic properties, as well as being useful in organic catalysis and biochemical studies. However, so far, a force field designed and validated specifically for the menthol molecule has not been constructed. In the present work, the validation and optimization of force field parameters with regard to the ability to reproduce the macroscopic properties of menthol is presented. The set of optimized potentials for liquid simulations all atom (OPLS-AA) compatible parameters was tested and carefully tuned. The refinement of parameters included fitting of partial atomic charges, optimization of Lennard-Jones parameters, and recalculation of the dihedral angle parameters needed to reproduce quantum energy profiles. To validate the force field, a variety of physicochemical properties were calculated for liquid menthol. Both thermodynamic and kinetic properties were taken into account, including density, surface tension, enthalpy of vaporization, and shear viscosity. The obtained force field was proven to accurately reproduce the properties of the investigated compound while being fully compatible with the OPLS-AA force field. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s00894-016-3082-1) contains supplementary material, which is available to authorized users. Springer Berlin Heidelberg 2016-09-07 2016 /pmc/articles/PMC5014899/ /pubmed/27604277 http://dx.doi.org/10.1007/s00894-016-3082-1 Text en © The Author(s) 2016 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. |
spellingShingle | Original Paper Jasik, Mateusz Szefczyk, Borys Parameterization and optimization of the menthol force field for molecular dynamics simulations |
title | Parameterization and optimization of the menthol force field for molecular dynamics simulations |
title_full | Parameterization and optimization of the menthol force field for molecular dynamics simulations |
title_fullStr | Parameterization and optimization of the menthol force field for molecular dynamics simulations |
title_full_unstemmed | Parameterization and optimization of the menthol force field for molecular dynamics simulations |
title_short | Parameterization and optimization of the menthol force field for molecular dynamics simulations |
title_sort | parameterization and optimization of the menthol force field for molecular dynamics simulations |
topic | Original Paper |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5014899/ https://www.ncbi.nlm.nih.gov/pubmed/27604277 http://dx.doi.org/10.1007/s00894-016-3082-1 |
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