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ThermoMutDB: a thermodynamic database for missense mutations
Proteins are intricate, dynamic structures, and small changes in their amino acid sequences can lead to large effects on their folding, stability and dynamics. To facilitate the further development and evaluation of methods to predict these changes, we have developed ThermoMutDB, a manually curated...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7778973/ https://www.ncbi.nlm.nih.gov/pubmed/33095862 http://dx.doi.org/10.1093/nar/gkaa925 |
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author | Xavier, Joicymara S Nguyen, Thanh-Binh Karmarkar, Malancha Portelli, Stephanie Rezende, Pâmela M Velloso, João P L Ascher, David B Pires, Douglas E V |
author_facet | Xavier, Joicymara S Nguyen, Thanh-Binh Karmarkar, Malancha Portelli, Stephanie Rezende, Pâmela M Velloso, João P L Ascher, David B Pires, Douglas E V |
author_sort | Xavier, Joicymara S |
collection | PubMed |
description | Proteins are intricate, dynamic structures, and small changes in their amino acid sequences can lead to large effects on their folding, stability and dynamics. To facilitate the further development and evaluation of methods to predict these changes, we have developed ThermoMutDB, a manually curated database containing >14,669 experimental data of thermodynamic parameters for wild type and mutant proteins. This represents an increase of 83% in unique mutations over previous databases and includes thermodynamic information on 204 new proteins. During manual curation we have also corrected annotation errors in previously curated entries. Associated with each entry, we have included information on the unfolding Gibbs free energy and melting temperature change, and have associated entries with available experimental structural information. ThermoMutDB supports users to contribute to new data points and programmatic access to the database via a RESTful API. ThermoMutDB is freely available at: http://biosig.unimelb.edu.au/thermomutdb. |
format | Online Article Text |
id | pubmed-7778973 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-77789732021-01-06 ThermoMutDB: a thermodynamic database for missense mutations Xavier, Joicymara S Nguyen, Thanh-Binh Karmarkar, Malancha Portelli, Stephanie Rezende, Pâmela M Velloso, João P L Ascher, David B Pires, Douglas E V Nucleic Acids Res Database Issue Proteins are intricate, dynamic structures, and small changes in their amino acid sequences can lead to large effects on their folding, stability and dynamics. To facilitate the further development and evaluation of methods to predict these changes, we have developed ThermoMutDB, a manually curated database containing >14,669 experimental data of thermodynamic parameters for wild type and mutant proteins. This represents an increase of 83% in unique mutations over previous databases and includes thermodynamic information on 204 new proteins. During manual curation we have also corrected annotation errors in previously curated entries. Associated with each entry, we have included information on the unfolding Gibbs free energy and melting temperature change, and have associated entries with available experimental structural information. ThermoMutDB supports users to contribute to new data points and programmatic access to the database via a RESTful API. ThermoMutDB is freely available at: http://biosig.unimelb.edu.au/thermomutdb. Oxford University Press 2020-10-23 /pmc/articles/PMC7778973/ /pubmed/33095862 http://dx.doi.org/10.1093/nar/gkaa925 Text en © The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Database Issue Xavier, Joicymara S Nguyen, Thanh-Binh Karmarkar, Malancha Portelli, Stephanie Rezende, Pâmela M Velloso, João P L Ascher, David B Pires, Douglas E V ThermoMutDB: a thermodynamic database for missense mutations |
title | ThermoMutDB: a thermodynamic database for missense mutations |
title_full | ThermoMutDB: a thermodynamic database for missense mutations |
title_fullStr | ThermoMutDB: a thermodynamic database for missense mutations |
title_full_unstemmed | ThermoMutDB: a thermodynamic database for missense mutations |
title_short | ThermoMutDB: a thermodynamic database for missense mutations |
title_sort | thermomutdb: a thermodynamic database for missense mutations |
topic | Database Issue |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7778973/ https://www.ncbi.nlm.nih.gov/pubmed/33095862 http://dx.doi.org/10.1093/nar/gkaa925 |
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