Antigenic site prediction

Coimients on attempts to predict location of protein antigenic sites. 

Pellequer JL, Westhof E, Van Begenmortel MH (1993) Correlation between the location of antigenic sites and the prediction of turns in proteins. Immunol Lett 36 83-99... 

Sabin EA, Pearce EJ. Early IL-4 production by non-CD4 cells at the site of antigen deposition predicts the development of a T helper 2 cell response to Schistosoma mansoni eggs. J Immuno 1995 155 4844-53. 

There are four structural arenas covered by secondary structure prediction methodologies from the amino acid sequence alone (1) typical protein secondary structures as helices, j0-strands, turns and coil (c.f., 60-62) (li) transmembrane helices (iii) signal and target sequences and (Iv) antigenic sites. The prediction area is usually in a constant state of review. It is intended here to give only a summary of the techniques and their usefulness and to discuss some of the more recent developments. Recent reviews will be given. 

Protein and DNA sequence analysis, particularly comprehensive including prediction of transmembrane helical segments, antigenic sites, and the like... 

When the binding functions are known for each determinant, it is possible to predict the experimental binding curve for the whole antiserum. Such an analysis was applied to the amino terminus of the chain of hemoglobin S, j8 (l-55) which contains known nonoverlapping antigenic sites jS (l-13) and )5 (40-53). However, it is not always possible to dissect out all the individual determinants of an antigen molecule. However, this treatment emphasizes the fact that the shape of the binding curves can be affected by the various interactions. 

Parker JM, Guo D, Hodges RS (1986) New hydrophificity scale derived from high-performance liquid chromatography peptide retention data correlation of predicted surface residues with antigenicity and X-ray-derived accessible sites. Biochemistry 25 5425-5432... 

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