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Journal of Biomolecular Structure and Dynamics Volume 15, 1998 - Issue 5
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Original Articles

Variability Analysis of HIV-1 gp120 V3 Region: IV. Distribution Functions for Intra- and Inter- Subtype Amino Acid Hamming Distances

Michael Yu Shchelkanov Moscow Institute of Physics and Technology, Faculty of Physicochemical Biology, Department of Molecular Biophysics, Dolgoprudny, Moscow region, 141700, Russia; D. I. Ivanovsky Institute of Virology, Immunochemistry Group, Gamaley 16, Moscow, 123098, Russia
,
Nicole S. Starikov Moscow Institute of Physics and Technology, Faculty of Physicochemical Biology, Department of Molecular Biophysics, Dolgoprudny, Moscow region, 141700, Russia; D. I. Ivanovsky Institute of Virology, Immunochemistry Group, Gamaley 16, Moscow, 123098, Russia
,
Ilya V. Yaroslavtsev Moscow Aviation Institute, Faculty of Mathematics, Department of Mathematical, Cybernetics, Moscow, 115098, Russia
,
Philip O. Tsvetkov Institute of Molecular Biology, Moscow, 117989, Russia
,
Alex N. Yudin Moscow Institute of Physics and Technology, Faculty of Physicochemical Biology, Department of Molecular Biophysics, Dolgoprudny, Moscow region, 141700, Russia; D. I. Ivanovsky Institute of Virology, Immunochemistry Group, Gamaley 16, Moscow, 123098, Russia
,
Maxim V. Denisov Moscow Institute of Physics and Technology, Faculty of Physicochemical Biology, Department of Molecular Biophysics, Dolgoprudny, Moscow region, 141700, Russia
,
Alexander A. Slavsky Moscow Institute of Physics and Technology, Faculty of Physicochemical Biology, Department of Molecular Biophysics, Dolgoprudny, Moscow region, 141700, Russia; D. I. Ivanovsky Institute of Virology, Immunochemistry Group, Gamaley 16, Moscow, 123098, Russia
,
Alexander A. Vedenov Moscow Institute of Physics and Technology, Faculty of Physicochemical Biology, Department of Molecular Biophysics, Dolgoprudny, Moscow region, 141700, Russia; Russian Scientific Center Kurchatov Institute, Kurchatov s., Moscow, 123182, Russia
&
Edward V. Karamov D. I. Ivanovsky Institute of Virology, Immunochemistry Group, Gamaley 16, Moscow, 123098, Russia; Moscow State University, Institute of Applied Research, Laboratory of Virology, Lenin's Hills, Moscow, 119899, Russia
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Pages 877-885 | Received 08 Dec 1997, Published online: 21 May 2012
 
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Abstract

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 (see ref. 17) for HIV-I V3 classification. Two-mode distribution for the subtype E could sertificate that this subtype includes two thinner taxons.

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Related Research Data

Variability analysis of HIV-1 gp120 V3 region: II. Hierarchy of taxons.
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