Using AlphaFold to predict the impact of single mutations on protein stability and function
Электронный научный архив УРФУ
Информация об архиве | Просмотр оригинала| Поле | Значение | |
| Заглавие |
Using AlphaFold to predict the impact of single mutations on protein stability and function
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| Автор |
Pak, M. A.
Markhieva, K. A. Novikova, M. S. Petrov, D. S. Vorobyev, I. S. Maksimova, E. S. Kondrashov, F. A. Ivankov, D. N. |
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| Тематика |
ARTICLE
FLUORESCENCE PREDICTION PROTEIN FOLDING PROTEIN FUNCTION PROTEIN STABILITY AMINO ACID SEQUENCE CHEMISTRY MUTATION PROTEIN FOLDING PROTEIN STABILITY PROTEIN AMINO ACID SEQUENCE MUTATION PROTEIN FOLDING PROTEIN STABILITY PROTEINS |
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| Описание |
AlphaFold changed the field of structural biology by achieving three-dimensional (3D) structure prediction from protein sequence at experimental quality. The astounding success even led to claims that the protein folding problem is "solved". However, protein folding problem is more than just structure prediction from sequence. Presently, it is unknown if the AlphaFoldtriggered revolution could help to solve other problems related to protein folding. Here we assay the ability of AlphaFold to predict the impact of single mutations on protein stability (δδG) and function. To study the question we extracted the pLDDT and pLDDT metrics from AlphaFold predictions before and after single mutation in a protein and correlated the predicted change with the experimentally known δδG values. Additionally, we correlated the same AlphaFold pLDDT metrics with the impact of a single mutation on structure using a large scale dataset of single mutations in GFP with the experimentally assayed levels of fluorescence. We found a very weak or no correlation between AlphaFold output metrics and change of protein stability or fluorescence. Our results imply that AlphaFold may not be immediately applied to other problems or applications in protein folding. © 2023 Pak et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
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| Дата |
2024-04-05T16:17:50Z
2024-04-05T16:17:50Z 2023 |
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| Тип |
Article
Journal article (info:eu-repo/semantics/article) |info:eu-repo/semantics/publishedVersion |
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| Идентификатор |
Pak, MA, Markhieva, KA, Novikova, MS, Petrov, DS, Vorobyev, IS, Maksimova, ES, Kondrashov, FA & Ivankov, DN 2023, 'Using AlphaFold to predict the impact of single mutations on protein stability and function', PLoS ONE, Том. 18, № 3, e0282689. https://doi.org/10.1371/journal.pone.0282689
Pak, M. A., Markhieva, K. A., Novikova, M. S., Petrov, D. S., Vorobyev, I. S., Maksimova, E. S., Kondrashov, F. A., & Ivankov, D. N. (2023). Using AlphaFold to predict the impact of single mutations on protein stability and function. PLoS ONE, 18(3), [e0282689]. https://doi.org/10.1371/journal.pone.0282689 1932-6203 Final All Open Access, Gold, Green https://www.scopus.com/inward/record.uri?eid=2-s2.0-85150446323&doi=10.1371%2fjournal.pone.0282689&partnerID=40&md5=03e531637ee4e255959ae6d984e55ff2 https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0282689&type=printable http://elar.urfu.ru/handle/10995/130289 10.1371/journal.pone.0282689 85150446323 |
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| Язык |
en
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| Права |
Open access (info:eu-repo/semantics/openAccess)
cc-by https://creativecommons.org/licenses/by/4.0/ |
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| Формат |
application/pdf
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| Издатель |
Public Library of Science
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| Источник |
PLOS ONE
PLoS ONE |
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