Differential Retention of Pfam Domains Contributes to Long-term Evolutionary Trends.

ABSTRACT: Protein domains that emerged more recently in evolution have a higher structural disorder and greater clustering of hydrophobic residues along the primary sequence. It is hard to explain how selection acting via descent with modification could act so slowly as not to saturate over the extraordinarily long timescales over which these trends persist. Here, we hypothesize that the trends were created by a higher level of selection that differentially affects the retention probabilities of protein domains with different properties. This hypothesis predicts that loss rates should depend on disorder and clustering trait values. To test this, we inferred loss rates via maximum likelihood for animal Pfam domains, after first performing a set of stringent quality control methods to reduce annotatio

SUBMITTER: James JE 

PROVIDER: S-EPMC10089649 | biostudies-literature | 2023 Apr

REPOSITORIES: biostudies-literature