Self-analysis of repeat proteins reveals evolutionarily conserved patterns.

ABSTRACT:

Background

Protein repeats can confound sequence analyses because the repetitiveness of their amino acid sequences lead to difficulties in identifying whether similar repeats are due to convergent or divergent evolution. We noted that the patterns derived from traditional "dot plot" protein sequence self-similarity analysis tended to be conserved in sets of related repeat proteins and this conservation could be quantitated using a Jaccard metric.

Results

Comparison of these dot plots obviated the issues due to sequence similarity for analysis of repeat proteins. A high Jaccard similarity score was suggestive of a conserved relationship between closely related repeat proteins. The dot plot patterns decayed quickly in the absence of selective pressure with an expected loss of

SUBMITTER: Merski M 

PROVIDER: S-EPMC7204011 | biostudies-literature | 2020 May

REPOSITORIES: biostudies-literature