Institut de Mathématiques de Marseille, UMR 7373


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Working in the twilight zone of sequence similarity

Lundi 13 février 2017 11:00-12:00 - Bianca HABERMANN - TAGC et IBDM, Marseille

Working in the twilight zone of sequence similarity

Résumé : Below 30% sequence identity lies the so-called twilight-zone of protein sequence similarity. Yet, it is well known that proteins can be evolutionarily related and share even less sequence identity. We refer to these as remotely conserved homologs or orthologs. Protein motifs, due to their extreme shortness, are also found in the twilight zone of sequence similarity.
My lab is interested in using such remote homologies to enhance our knowledge on protein evolution and protein function. In my talk, I will introduce two methods we use to work with remote sequence similarities.
One part of my talk will be dedicated to finding orthologs in the twilight zone of sequence similarity. I’ll introduce a method, morFeus, which uses relaxed BLAST-searches together with iterative reciprocal BLASTs for ortholog verification and network scoring to identify remotely conserved orthologs.
In the second part of the talk, I will focus on working with short linear motifs in proteins and present a novel method from my lab for de novo motif prediction in proteins, HH-MOTiF.

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Lieu : Luminy

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Pour en savoir plus sur cet événement, consultez l'article Séminaire Mathématiques, Évolution, Biologie (MEB)