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 Tools    >> Rankpep
Rankpep: prediction of binding peptides to
Class I and Class II MHC molecules

Plea for Support
If you have found this resource useful for your research, please, tell about it to the SECRETARIA GENERAL DE CIENCIA, TECNOLOGIA E INNOVACION OF SPAIN (sgcti@mineco.es, dgi@mineco.es).Your support will be crucial to keep it up and running. Thanks
Description
This server predicts peptide binders to MHCI and MHCII molecules from protein sequence/s or sequence alignments using Position Specific Scoring Matrices (PSSMs). In addition, it predicts those MHCI ligands whose C-terminal end is likely to be the result of proteasomal cleavage. A detailed explanation of the method can be found here.
PSSM
SELECT PSSM (Check MHCI or MHCII)
MHC I MHC II
OR, UPLOAD YOUR PSSM
INPUT
TYPE: FASTA sequence/s CLUSTALW multiple sequence alignment
Replace example with your query
OR, UPLOAD SEQUENCES
BINDING THRESHOLD
PERCENTAGE: TOP NUMBER:
PROTEASOME
CLEAVAGE
FILTER: LMPC :
If Filter is ON only peptides predicted to be cleaved are shown
ADVANCED OPTONS
RESTRICT RESULTS BY MW
Lower Limit for Molecular Weight
Upper Limit for Molecular Weight
VARIABILITY MASKING

Select Variability Threshold
Value must range between 0.0 and 4.3


Citation:
  • Reche PA et al. (2002). Prediction of MHC Class I Binding Peptides Using Profile Motifs. Human Immunology, 63: 701-709.
  • Reche PA et al. (2004) Enhancement to the RANKPEP resource for the prediction of peptide binding to MHC molecules using profiles. Immunogenetics, 56:405-419.
  • Reche PA, Reinherz EL (2007) Prediction of peptide-MHC binding using profiles. Methods Mol Biol., 409:185-200.
Praises & Complaints: Pedro A. Reche
Hits since January/2007 Last updated:

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