Finding coevolving amino acid residues using row and column weighting of mutual information and multi-dimensional amino acid representation
Open Access
- 3 October 2007
- journal article
- Published by Springer Nature in Algorithms for Molecular Biology
- Vol. 2 (1) , 12
Abstract
Some amino acid residues functionally interact with each other. This interaction will result in an evolutionary co-variation between these residues – coevolution. Our goal is to find these coevolving residues.Keywords
This publication has 27 references indexed in Scilit:
- A Novel Method for Detecting Intramolecular Coevolution: Adding a Further Dimension to Selective Constraints AnalysesGenetics, 2006
- Using information theory to search for co-evolving residues in proteinsBioinformatics, 2005
- Networks of Coevolving Sites in Structural and Functional Domains of Serpin ProteinsMolecular Biology and Evolution, 2005
- Influence of conservation on calculations of amino acid covariance in multiple sequence alignmentsProteins: Structure, Function, and Bioinformatics, 2004
- Evolutionarily conserved networks of residues mediate allosteric communication in proteinsNature Structural & Molecular Biology, 2002
- Mapping pathways of allosteric communication in GroEL by analysis of correlated mutationsProteins: Structure, Function, and Bioinformatics, 2002
- Coevolving protein residues: maximum likelihood identification and relationship to structure 1 1Edited by G. Von HeijneJournal of Molecular Biology, 1999
- Correlated mutations contain information about protein-protein interaction 1 1Edited by A. R. FershtJournal of Molecular Biology, 1997
- A Method for Testing the Correlated Evolution of Two Binary Characters: Are Gains or Losses Concentrated on Certain Branches of a Phylogenetic Tree?Evolution, 1990
- Tests for comparing related amino-acid sequences. Cytochrome c and cytochrome c551Journal of Molecular Biology, 1971