FIG 2.

Comparison of Envelope sequences reveals a dramatic elongation of the V1 domain in an HIV-1 elite controller. T-Coffee alignment of VA40774’s Envelope V1 domain against the HIV-1 clade B consensus sequence, one CXCR4-tropic (NL4-3) virus, and two CCR5-tropic (ADA, YU2) viruses reveals the presence of an elongation in V1. The V1 domain in VA40774’s HIV Envelope contains two cysteines (yellow boxes) separated by 12 amino acids and has two additional sites for N-linked glycosylation (NXT/NXS). Amino acid positions are shaded in gray where an amino acid represents more than 51% of the variation for that position. Positions for which there is no consensus amino acid are left unshaded. Gaps in the amino acid sequence are shown with a dash (-).