Impact of phylogeny on the inference of functional sectors from protein sequence data.

ABSTRACT: Statistical analysis of multiple sequence alignments of homologous proteins has revealed groups of coevolving amino acids called sectors. These groups of amino-acid sites feature collective correlations in their amino-acid usage, and they are associated to functional properties. Modeling showed that nonlinear selection on an additive functional trait of a protein is generically expected to give rise to a functional sector. These modeling results motivated a principled method, called ICOD, which is designed to identify functional sectors, as well as mutational effects, from sequence data. However, a challenge for all methods aiming to identify sectors from multiple sequence alignments is that correlations in amino-acid usage can also arise from the mere fact that homologous sequences share

SUBMITTER: Dietler N 

PROVIDER: S-EPMC11449291 | biostudies-literature | 2024 Sep

REPOSITORIES: biostudies-literature