Pepitope: epitope mapping from affinity-selected peptides.

TitlePepitope: epitope mapping from affinity-selected peptides.
Publication TypeJournal Article
Year of Publication2007
AuthorsMayrose I, Penn O, Erez E, Rubinstein ND, Shlomi T, Freund N T, Bublil EM, Ruppin E, Sharan R, Gershoni JM, Martz E, Pupko T
Date Published2007 Dec 1
KeywordsAlgorithms, Amino Acid Sequence, Binding Sites, Epitope Mapping, Molecular Sequence Data, Peptides, Protein Binding, Sequence Alignment, Sequence Analysis, Protein, Software

Identifying the epitope to which an antibody binds is central for many immunological applications such as drug design and vaccine development. The Pepitope server is a web-based tool that aims at predicting discontinuous epitopes based on a set of peptides that were affinity-selected against a monoclonal antibody of interest. The server implements three different algorithms for epitope mapping: PepSurf, Mapitope, and a combination of the two. The rationale behind these algorithms is that the set of peptides mimics the genuine epitope in terms of physicochemical properties and spatial organization. When the three-dimensional (3D) structure of the antigen is known, the information in these peptides can be used to computationally infer the corresponding epitope. A user-friendly web interface and a graphical tool that allows viewing the predicted epitopes were developed. Pepitope can also be applied for inferring other types of protein-protein interactions beyond the immunological context, and as a general tool for aligning linear sequences to a 3D structure. AVAILABILITY:

Alternate JournalBioinformatics
PubMed ID17977889