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Bioinformatics Advance Access originally published online on January 24, 2006
Bioinformatics 2006 22(9):1088-1095; doi:10.1093/bioinformatics/btl012
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Discontinuous epitope prediction based on mimotope analysis

Violaine Moreau , Claude Granier , Sylvie Villard , Daniel Laune and Franck Molina *

CNRS UMR 5160, Centre de Pharmacologie et Biotechnologie pour la Santé Faculté de Pharmacie, 15 Avenue Charles Flahault, BP 14491, 34093 Montpellier Cedex 5, France

*To whom correspondence should be addressed.

Motivation: Phage display is a widespread technique used to obtain peptide mimotopes selected by binding to a given monoclonal antibody in a similar way as the native epitope. However, the localization of the interaction site mimicked by the mimotopes on the surface of the antigen is not always a straightforward task. MIMOP is a computational tool developed with the aim of helping experimentalists to analyze a set of mimotope sequences and guide them in the identification of the mimicked region.

Results: To predict potential epitopic regions, MIMOP integrates two different approaches combining two- and three-dimensional analyses: MimAlign starts from degenerated alignment analyses, and MimCons is based on consensus identification. The relevance and usefulness of the tool are illustrated by four use cases corresponding to real-life situations.

Availability: upon request.

Contact: franck.molina{at}cpbs.univ-montp1.fr

Received on October 21, 2005; revised on January 10, 2006; accepted on January 19, 2006

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