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HLA-Peptide Binding Prediction Using Structural and Modeling Principles

Protocol
Part of the Methods in Molecular Biology™ book series (MIMB, volume 409)

Summary

Short peptides binding to specific human leukocyte antigen (HLA) alleles elicit immune response. These candidate peptides have potential utility in peptide vaccine design and development. The binding of peptides to allele-specific HLA molecule is estimated using competitive binding assay and biochemical binding constants. Application of this method for proteome-wide screening in parasites, viruses, and virulent bacterial strains is laborious and expensive. However, short listing of candidate peptides using prediction approaches have been realized lately. Prediction of peptide binding to HLA alleles using structural and modeling principles has gained momentum in recent years. Here, we discuss the current status of such prediction

Key Words

HLA-peptide binding modeling dynamics simulation threading optimization free energy virtual matrix virtual pockets QSAR 
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Copyright information

© Humana Press Inc. 2007

Authors and Affiliations

  1. 1.School of Mechanical and Aerospace EngineeringNANYANG Technological UniversitySingapore

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