FIG. 2.

Nef sequence variation within and between NPs and progressors (P). The middle lines depict the NP (upper) and P (lower) consensus sequences with the predominant residue at each position. The sequence variation is represented above (NP) and below (P) the consensus sequences. Subscripted numbers show the number of patient-specific consensus Nef protein sequences in which that amino acid was observed. Several conserved motifs and the locations of five Nef features more frequently observed in NPs (NP-1 to NP-5) and nine features more frequently observed in progressors (P-1 to P-9) are indicated by shaded ovals. Differences between the NP and P consensus sequences are indicated by vertical bars. Amino acids that differ markedly between the two groups of patients are in white with black background. For symbols, see the legend to Fig. 1.