Variability analysis of HIV-1 gp120 V3 region: IV. Distribution functions for intra- and inter-subtype amino acid hamming distances.
Distribution functions for intra- and inter- HIV-1 V3-loop subtypes amino acid Hamming distances were calculated (850 V3-loop sequences from the Los Alamos HIV-1 Database (1996) were used). These functions have pronounced bell-like shape. Such shapes of the histograms for HIV-1 V3 intra- and inter-subtype distriutions are discussed to confirm the applicability of different hierarchical cluster procedures for HIV-1 V3 classification. Two-mode distribution for the subtype E could sertificate that this subtype includes two thinner taxons.
Shchelkanov MYu
Moscow Institute of Physics and Technology, Faculty of Physicochemical Biology, Department of Molecular Biophysics, Dolgoprudny, Moscow region, Russia.
Starikov
N S
NS
Yaroslavtsev
I V
IV
Tsvetkov
P O
PO
Yudin
A N
AN
Denisov
M V
MV
Slavsky
A A
AA
Vedenov
A A
AA
Karamov
E V
EV
D000596:Amino Acids; D015699:HIV Envelope Protein gp120 / Q000737:chemistry*; D006801:Humans; D008432:Mathematical Computing; D010446:Peptide Fragments / Q000737:chemistry*
D000596:Amino Acids; D015699:HIV Envelope Protein gp120; C059762:HIV envelope protein gp120 (305-321); D010446:Peptide Fragments