Levels of HIV1 gp120 3D B-cell epitopes mutability and variability: searching for possible vaccine epitopes

Immunological Investigations
Vladislav V Khrustalev

Abstract

We used a DiscoTope 1.2 (http://www.cbs.dtu.dk/services/DiscoTope/), Epitopia (http://epitopia.tau.ac.il/) and EPCES (http://www.t38.physik.tu-muenchen.de/programs.htm) algorithms to map discontinuous B-cell epitopes in HIV1 gp120. The most mutable nucleotides in HIV genes are guanine (because of G to A hypermutagenesis) and cytosine (because of C to U and C to A mutations). The higher is the level of guanine and cytosine usage in third (neutral) codon positions and the lower is their level in first and second codon positions of the coding region, the more stable should be an epitope encoded by this region. We compared guanine and cytosine usage in regions coding for five predicted 3D B-cell epitopes of gp120. To make this comparison we used GenBank resource: 385 sequences of env gene obtained from ten HIV1-infected individuals were studied (http://www.barkovsky.hotmail.ru/Data/Seqgp120.htm). The most protected from nonsynonymous nucleotide mutations of guanine and cytosine 3D B-cell epitope is situated in the first conserved region of gp120 (it is mapped from 66th to 86th amino acid residue). We applied a test of variability to confirm this finding. Indeed, the less mutable predicted B-cell epitope is the less variable one. ME...Continue Reading

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Citations

Jul 27, 2014·Molecular Immunology·Tatyana Aleksandrovna KhrustalevaAnatoly Archipovich Astapov
Dec 21, 2012·Immunological Investigations·Lan LiHao Wu
Jun 25, 2014·Journal of Controlled Release : Official Journal of the Controlled Release Society·Heleen DewitteIne Lentacker
Oct 20, 2020·Frontiers in Microbiology·Vladislav Victorovich KhrustalevVictor Vitoldovich Poboinev

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