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Integration of experimental data and use of automated fitting methods in developing protein force fields

The development of accurate protein force fields has been the cornerstone of molecular simulations for the past 50 years. During this period, many lessons have been learned regarding the use of experimental target data and parameter fitting procedures. Here, we review recent advances in protein forc...

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Autores principales: Polêto, Marcelo D., Lemkul, Justin A.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8979544/
https://www.ncbi.nlm.nih.gov/pubmed/35382231
http://dx.doi.org/10.1038/s42004-022-00653-z
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author Polêto, Marcelo D.
Lemkul, Justin A.
author_facet Polêto, Marcelo D.
Lemkul, Justin A.
author_sort Polêto, Marcelo D.
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description The development of accurate protein force fields has been the cornerstone of molecular simulations for the past 50 years. During this period, many lessons have been learned regarding the use of experimental target data and parameter fitting procedures. Here, we review recent advances in protein force field development. We discuss the recent emergence of polarizable force fields and the role of electronic polarization and areas in which additive force fields fall short. The use of automated fitting methods and the inclusion of additional experimental solution data during parametrization is discussed as a means to highlight possible routes to improve the accuracy of force fields even further.
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spelling pubmed-89795442022-04-04 Integration of experimental data and use of automated fitting methods in developing protein force fields Polêto, Marcelo D. Lemkul, Justin A. Commun Chem Review Article The development of accurate protein force fields has been the cornerstone of molecular simulations for the past 50 years. During this period, many lessons have been learned regarding the use of experimental target data and parameter fitting procedures. Here, we review recent advances in protein force field development. We discuss the recent emergence of polarizable force fields and the role of electronic polarization and areas in which additive force fields fall short. The use of automated fitting methods and the inclusion of additional experimental solution data during parametrization is discussed as a means to highlight possible routes to improve the accuracy of force fields even further. Nature Publishing Group UK 2022-03-18 /pmc/articles/PMC8979544/ /pubmed/35382231 http://dx.doi.org/10.1038/s42004-022-00653-z Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as 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. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Review Article
Polêto, Marcelo D.
Lemkul, Justin A.
Integration of experimental data and use of automated fitting methods in developing protein force fields
title Integration of experimental data and use of automated fitting methods in developing protein force fields
title_full Integration of experimental data and use of automated fitting methods in developing protein force fields
title_fullStr Integration of experimental data and use of automated fitting methods in developing protein force fields
title_full_unstemmed Integration of experimental data and use of automated fitting methods in developing protein force fields
title_short Integration of experimental data and use of automated fitting methods in developing protein force fields
title_sort integration of experimental data and use of automated fitting methods in developing protein force fields
topic Review Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8979544/
https://www.ncbi.nlm.nih.gov/pubmed/35382231
http://dx.doi.org/10.1038/s42004-022-00653-z
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