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ENCoM server: exploring protein conformational space and the effect of mutations on protein function and stability

ENCoM is a coarse-grained normal mode analysis method recently introduced that unlike previous such methods is unique in that it accounts for the nature of amino acids. The inclusion of this layer of information was shown to improve conformational space sampling and apply for the first time a coarse...

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Detalles Bibliográficos
Autores principales: Frappier, Vincent, Chartier, Matthieu, Najmanovich, Rafael J.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4489264/
https://www.ncbi.nlm.nih.gov/pubmed/25883149
http://dx.doi.org/10.1093/nar/gkv343
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author Frappier, Vincent
Chartier, Matthieu
Najmanovich, Rafael J.
author_facet Frappier, Vincent
Chartier, Matthieu
Najmanovich, Rafael J.
author_sort Frappier, Vincent
collection PubMed
description ENCoM is a coarse-grained normal mode analysis method recently introduced that unlike previous such methods is unique in that it accounts for the nature of amino acids. The inclusion of this layer of information was shown to improve conformational space sampling and apply for the first time a coarse-grained normal mode analysis method to predict the effect of single point mutations on protein dynamics and thermostability resulting from vibrational entropy changes. Here we present a web server that allows non-technical users to have access to ENCoM calculations to predict the effect of mutations on thermostability and dynamics as well as to generate geometrically realistic conformational ensembles. The server is accessible at: http://bcb.med.usherbrooke.ca/encom.
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spelling pubmed-44892642015-07-07 ENCoM server: exploring protein conformational space and the effect of mutations on protein function and stability Frappier, Vincent Chartier, Matthieu Najmanovich, Rafael J. Nucleic Acids Res Web Server issue ENCoM is a coarse-grained normal mode analysis method recently introduced that unlike previous such methods is unique in that it accounts for the nature of amino acids. The inclusion of this layer of information was shown to improve conformational space sampling and apply for the first time a coarse-grained normal mode analysis method to predict the effect of single point mutations on protein dynamics and thermostability resulting from vibrational entropy changes. Here we present a web server that allows non-technical users to have access to ENCoM calculations to predict the effect of mutations on thermostability and dynamics as well as to generate geometrically realistic conformational ensembles. The server is accessible at: http://bcb.med.usherbrooke.ca/encom. Oxford University Press 2015-07-01 2015-04-16 /pmc/articles/PMC4489264/ /pubmed/25883149 http://dx.doi.org/10.1093/nar/gkv343 Text en © The Author(s) 2015. 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 Web Server issue
Frappier, Vincent
Chartier, Matthieu
Najmanovich, Rafael J.
ENCoM server: exploring protein conformational space and the effect of mutations on protein function and stability
title ENCoM server: exploring protein conformational space and the effect of mutations on protein function and stability
title_full ENCoM server: exploring protein conformational space and the effect of mutations on protein function and stability
title_fullStr ENCoM server: exploring protein conformational space and the effect of mutations on protein function and stability
title_full_unstemmed ENCoM server: exploring protein conformational space and the effect of mutations on protein function and stability
title_short ENCoM server: exploring protein conformational space and the effect of mutations on protein function and stability
title_sort encom server: exploring protein conformational space and the effect of mutations on protein function and stability
topic Web Server issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4489264/
https://www.ncbi.nlm.nih.gov/pubmed/25883149
http://dx.doi.org/10.1093/nar/gkv343
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