To identify sequence variation within Gag associated with disease progression, we compared sequences from viral variants obtained late in infection from 5 HLA-B*57/58:01 progressors (43 sequences; Table 1 and Table S1) and 5 HLA-B*57/58:01 LTNPs (45 sequences; Table 1 and Table S1) with SH, using a cut-off value of 0.90. The gene discussed is HLA-B; the disease is infection.