Identification of coevolving positions by ancestral reconstruction.

ABSTRACT: Coevolution within proteins occurs when changes in one position affect the selective pressure in another position to preserve the protein structure or function. The identification of coevolving positions within proteins remains contentious, with most methods disregarding the phylogenetic information. Here, we present a time-efficient approach for detecting coevolving pairs, which is almost perfect in terms of precision and specificity. It is based on maximum parsimony-based ancestral reconstruction followed by the identification of pairs with a depletion on separate changes when compared to their number of concurrent changes. Our analysis of a previously characterised biological dataset shows that the coevolving pairs that we identified tend to be close in the protein sequence and structur

SUBMITTER: Nelson MG 

PROVIDER: S-EPMC11871020 | biostudies-literature | 2025 Feb

REPOSITORIES: biostudies-literature