Pepitope: epitope mapping from affinity-selected peptides.
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/
Mayrose
Itay
I
Department of Cell Research and Immunology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv 69978, Israel.
Penn
Osnat
O
Erez
Elana
E
Rubinstein
Nimrod D
ND
Shlomi
Tomer
T
Freund
Natalia Tarnovitski
NT
Bublil
Erez M
EM
Ruppin
Eytan
E
Sharan
Roded
R
Gershoni
Jonathan M
JM
Martz
Eric
E
Pupko
Tal
T
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
D010455:Peptides