Systematic analysis of compositional order of proteins reveals new characteristics of biological functions and a universal correlate of macroevolution.

ABSTRACT: We present a novel analysis of compositional order (CO) based on the occurrence of Frequent amino-acid Triplets (FTs) that appear much more than random in protein sequences. The method captures all types of proteomic compositional order including single amino-acid runs, tandem repeats, periodic structure of motifs and otherwise low complexity amino-acid regions. We introduce new order measures, distinguishing between 'regularity', 'periodicity' and 'vocabulary', to quantify these phenomena and to facilitate the identification of evolutionary effects. Detailed analysis of representative species across the tree-of-life demonstrates that CO proteins exhibit numerous functional enrichments, including a wide repertoire of particular patterns of dependencies on regularity and periodicity. Compar

SUBMITTER: Persi E 

PROVIDER: S-EPMC3836704 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature