title: Pepitope: epitope mapping from affinity-selected peptides.
abstract: 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.
  
  
  BACKGROUND
  http://pepitope.tau.ac.il/
authors.affiliation: Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv 69978, Israel.
authors.forename: Itay
authors.initials: I
authors.lastname: Mayrose
authors.forename: Osnat
authors.initials: O
authors.lastname: Penn
authors.forename: Elana
authors.initials: E
authors.lastname: Erez
authors.forename: Nimrod D
authors.initials: ND
authors.lastname: Rubinstein
authors.forename: Tomer
authors.initials: T
authors.lastname: Shlomi
authors.forename: Natalia Tarnovitski
authors.initials: NT
authors.lastname: Freund
authors.forename: Erez M
authors.initials: EM
authors.lastname: Bublil
authors.forename: Eytan
authors.initials: E
authors.lastname: Ruppin
authors.forename: Roded
authors.initials: R
authors.lastname: Sharan
authors.forename: Jonathan M
authors.initials: JM
authors.lastname: Gershoni
authors.forename: Eric
authors.initials: E
authors.lastname: Martz
authors.forename: Tal
authors.initials: T
authors.lastname: Pupko
mesh_terms: D000465:Algorithms; D000595:Amino Acid Sequence; D001665:Binding Sites; D018604:Epitope Mapping / Q000379:methods*; D008969:Molecular Sequence Data; D010455:Peptides / Q000737:chemistry* / Q000276:immunology*; D011485:Protein Binding; D016415:Sequence Alignment / Q000379:methods*; D020539:Sequence Analysis, Protein / Q000379:methods*; D012984:Software
chemical_list: D010455:Peptides