Create multiple alignemts, try three different programs clustalw, clustalo a muscle. Programs are installes on VM, all are easy to install or you can use online version available at EBI. For visualization you can use clustalx or mview, both available online at EBI.
Data:
Create multiple alignment of HIV proteins gp120. Use biological knowledge to confirm, that your alignment is valid.
gp120 contains 9 conserved disulfide bridges. Also relevant is the so-called V3-loop. This is a surface-exposed highly immunogenic antibody-binding and hypervariable (immunological escape) region of gp120, which has been extensively sequenced.
