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DILIMOT: discovery of linear motifs in proteins
EMBL, Meyerhofstrasse 1 69117 Heidelberg, Germany
*To whom correspondence should be addressed. Tel: +49 6221 387 8473; Fax: +49 6221 387 8517; Email: russell{at}embl.de
Received February 14, 2006. Revised March 9, 2006. Accepted March 20, 2006.
Discovery of protein functional motifs is critical in modern biology. Small segments of 3–10 residues play critical roles in protein interactions, post-translational modifications and trafficking. DILIMOT (DIscovery of LInear MOTifs) is a server for the prediction of these short linear motifs within a set of proteins. Given a set of sequences sharing a common functional feature (e.g. interaction partner or localization) the method finds statistically over-represented motifs likely to be responsible for it. The input sequences are first passed through a set of filters to remove regions unlikely to contain instances of linear motifs. Motifs are then found in the remaining sequence and ranked according to a statistic that measure over-representation and conservation across homologues in related species. The results are displayed via a visual interface for easy perusal. The server is available at http://dilimot.embl.de
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