Detection of unrelated proteins in sequences multiple alignments by using predicted secondary structures |
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Authors: | Errami Mounir Geourjon Christophe Deléage Gilbert |
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Institution: | P?le de BioInformatique Lyonnais, Institut de Biologie et de Chimie des Protéines, Centre National de la Recherche Scientifique, UMR 5086, 69367 Lyon CEDEX 07, France. |
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Abstract: | MOTIVATION: Multiple sequence alignments are essential tools for establishing the homology relations between proteins. Essential amino acids for the function and/or the structure are generally conserved, thus providing key arguments to help in protein characterization. However for distant proteins, it is more difficult to establish, in a reliable way, the homology relations that may exist between them. In this article, we show that secondary structure prediction is a valuable way to validate protein families at low identity rate. RESULTS: We show that the analysis of the secondary structures compatibility is a reliable way to discard non-related proteins in low identity multiple alignment. AVAILABILITY: This validation is possible through our NPS@ server (http://npsa-pbil.ibcp.fr) |
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