FIG. 5.

Multiple alignments of the inferred amino acid sequence of the HIV-1 env V4 loop coding sequences and its flanking regions of clones from patients 1, 2, and 3 (isolates PA, SI, and RO, respectively). The consensus V4-C3 amino acid sequence of European and North American HIV-1 subtype B (Subtype B CONS) is shown at the top. The V4 loop is boxed. Amino acids are numbered according to their position in the HIV-1 LAI sequence (32). The question marks indicate hypervariable sites at indicated positions. Asterisks designate the noncontiguous amino acids of the signature pattern in the V4-C4 region for patient 1 (Table 2). The amino acid region located after the frame shift in clones RO5, RO8, and SI14 was kept blank. Other symbols are defined in the legend to Fig. 4.