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Umbrella sampling and double decoupling data for methanol binding to Candida antarctica lipase B

The binding free-energy profile of methanol to Candida antarctica lipase B (CALB) was calculated at infinite dilution and at a finite methanol concentration of 6.1 M using umbrella sampling molecular dynamics simulations with the OPLS all-atom force field. An additional validation of the results was...

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Detalles Bibliográficos
Autores principales: Markthaler, Daniel, Hansen, Niels
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8633857/
https://www.ncbi.nlm.nih.gov/pubmed/34877385
http://dx.doi.org/10.1016/j.dib.2021.107618
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author Markthaler, Daniel
Hansen, Niels
author_facet Markthaler, Daniel
Hansen, Niels
author_sort Markthaler, Daniel
collection PubMed
description The binding free-energy profile of methanol to Candida antarctica lipase B (CALB) was calculated at infinite dilution and at a finite methanol concentration of 6.1 M using umbrella sampling molecular dynamics simulations with the OPLS all-atom force field. An additional validation of the results was performed by employing alchemical double decoupling simulations. The binding free-energy profiles have been used in a related research article to validate free-energy profiles obtained from direct counting simulations with the aim to use the kinetic information encoded in the latter. The data provided in this work will be useful to study concentration effects on binding, to test alternative free energy methods or to use the proposed simulation protocol for related systems.
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spelling pubmed-86338572021-12-06 Umbrella sampling and double decoupling data for methanol binding to Candida antarctica lipase B Markthaler, Daniel Hansen, Niels Data Brief Data Article The binding free-energy profile of methanol to Candida antarctica lipase B (CALB) was calculated at infinite dilution and at a finite methanol concentration of 6.1 M using umbrella sampling molecular dynamics simulations with the OPLS all-atom force field. An additional validation of the results was performed by employing alchemical double decoupling simulations. The binding free-energy profiles have been used in a related research article to validate free-energy profiles obtained from direct counting simulations with the aim to use the kinetic information encoded in the latter. The data provided in this work will be useful to study concentration effects on binding, to test alternative free energy methods or to use the proposed simulation protocol for related systems. Elsevier 2021-11-22 /pmc/articles/PMC8633857/ /pubmed/34877385 http://dx.doi.org/10.1016/j.dib.2021.107618 Text en © 2021 The Author(s) https://creativecommons.org/licenses/by/4.0/This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Data Article
Markthaler, Daniel
Hansen, Niels
Umbrella sampling and double decoupling data for methanol binding to Candida antarctica lipase B
title Umbrella sampling and double decoupling data for methanol binding to Candida antarctica lipase B
title_full Umbrella sampling and double decoupling data for methanol binding to Candida antarctica lipase B
title_fullStr Umbrella sampling and double decoupling data for methanol binding to Candida antarctica lipase B
title_full_unstemmed Umbrella sampling and double decoupling data for methanol binding to Candida antarctica lipase B
title_short Umbrella sampling and double decoupling data for methanol binding to Candida antarctica lipase B
title_sort umbrella sampling and double decoupling data for methanol binding to candida antarctica lipase b
topic Data Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8633857/
https://www.ncbi.nlm.nih.gov/pubmed/34877385
http://dx.doi.org/10.1016/j.dib.2021.107618
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