HIV molecular immunology database
These plots show the number of reported human HIV-1 epitopes spanning each amino acid, for all HIV-1 proteins in the database. The positions are based on the standard HXB2 reference strain numbering. Our database is a summary of all HIV-1 epitopes reported in the literature, so these plots reflect the sampling biases of the field. This is particularly problematic as some HIV-1 proteins are studied much more intensely than others in natural infection, and some proteins are used more often as a vaccine, with responses mapped. Within a given protein, however, sampling is more consistent across the length of the protein, so regions of very high epitope density relative to low density in a single protein (like within Gag) are more likely reflect something inherent in the immunogenicity of the local region.
The antibody maps essentially reflect a summary of known linear epitopes. There is a PDF version of each plot available for download.
PDF version: count_by_aa.pdf