We present an easy protocol for evolutionary analysis of proteins, with an emphasis on studying the evolutionary dynamics of disordered regions. Using the p53 protein family as an example, we provide a guide for finding homologous sequences in a database and refining a dataset before constructing the evolutionary context by building a phylogenetic tree. We show how a multiple sequence alignment and phylogeny for a protein family can be further partitioned into smaller datasets in order to investigate the changes in disorder content across the phylogeny. Based on the evolutionary context, we also investigate site-specific conservation of disorder. Last, we address how to evaluate the evolutionary dynamics of disorder-to-order transitions.
CITATION STYLE
Nunez-Castilla, J., & Siltberg-Liberles, J. (2020). An easy protocol for evolutionary analysis of intrinsically disordered proteins. In Methods in Molecular Biology (Vol. 2141, pp. 147–177). Humana Press Inc. https://doi.org/10.1007/978-1-0716-0524-0_7
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