PMID:16301205

Citation	Kim, Y, Koyutürk, M, Topkara, U, Grama, A and Subramaniam, S (2006) Inferring functional information from domain co-evolution. Bioinformatics 22:40-9
Abstract	Co-evolution is a powerful mechanism for understanding protein function. Prior work in this area has shown that co-evolving proteins are more likely to share the same function than those that do not because of functional constraints. Many of the efforts founded on this observation, however, are at the level of entire sequences, implicitly assuming that the complete protein sequence follows a single evolutionary trajectory. Since it is well known that a domain can exist in various contexts, this assumption is not valid for numerous multi-domain proteins. Motivated by these observations, we introduce a novel technique called Coevolutionary-Matrix that captures co-evolution between regions of two proteins. Instead of using existing domain information, the method exploits residue-level conservation to identify co-evolving regions that might correspond to domains.
Links	PubMed Online version:10.1093/bioinformatics/bti723
Keywords	Algorithms; Bacterial Proteins/metabolism; Computational Biology/methods; Databases, Protein; Escherichia coli/metabolism; Escherichia coli Proteins/chemistry; Escherichia coli Proteins/metabolism; Evolution, Molecular; Genome, Bacterial; Membrane Proteins/metabolism; Models, Statistical; Phylogeny; Predictive Value of Tests; Protein Binding; Protein Kinases/metabolism; Protein Structure, Tertiary; Proteins/chemistry; Sequence Alignment; Software
edit table

Significance

You can help EcoliWiki by summarizing why this paper is useful

Useful Materials and Methods

You can help Ecoliwiki by describing the useful materials (strains, plasmids, antibodies, etc) described in this paper.

Annotations

<annotationlinks/>

EcoliWiki Links

Add links to pages that link here (e.g. gene, product, method pages)

References

See Help:References for how to manage references in EcoliWiki.