Co-Variation Approaches to the Evolution of Protein Families
| Autor: | Bruck Taddese, Daniel Henrion, Julien Pelé, Hervé Abdi, Marie Chabbert, Madeline Deniaud, Antoine Garnier |
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| Přispěvatelé: | CHABBERT, Marie, MitoVasc - Physiopathologie Cardiovasculaire et Mitochondriale (MITOVASC), Université d'Angers (UA)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), University of Texas at Austin [Austin], Physiopathologie Cardiovasculaire et Mitochondriale (MITOVASC) |
| Jazyk: | angličtina |
| Rok vydání: | 2017 |
| Předmět: |
0301 basic medicine
Sequence co-variation Protein function Multiple sequence alignment [SDV.BIBS] Life Sciences [q-bio]/Quantitative Methods [q-bio.QM] Phylogenetic tree Protein family Computer science Applied Mathematics General Mathematics Computational biology Co variation [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM] Protein evolution 03 medical and health sciences 030104 developmental biology GPCR Epistasis Entropy (information theory) ComputingMilieux_MISCELLANEOUS |
| Zdroj: | Advanced Techniques in Biology & Medicine Advanced Techniques in Biology & Medicine, 2017, 05 (04), ⟨10.4172/2379-1764.1000250⟩ Advanced Techniques in Biology & Medicine, Omics Publishing Group, 2017, 05 (04), ⟨10.4172/2379-1764.1000250⟩ |
| ISSN: | 2379-1764 |
| DOI: | 10.4172/2379-1764.1000250⟩ |
| Popis: | In a multiple sequence alignment, sequence co-variations result from structural, functional, and/or phylogenetic constraints. Numerous methods have been developed to calculate co-variation scores, but few studies have compared these methods to identify which methods are best suited for the analysis of protein family divergence. Here, we give an overview of widely used methods and identify simple rules for selection of appropriate methods. Specifically, we found that methods such as OMES and ELSC-which favor pairs with intermediate entropy and covariation networks with hub structure-are well suited to reveal evolutionary information on family divergence. When applied to G protein-coupled receptors, these methods support an epistasis model of protein evolution in which, after a key mutation, co-evolution of several residues was necessary to restore and/or shift protein function. |
| Databáze: | OpenAIRE |
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