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Journal of Virology, May 2007, p. 4886-4891, Vol. 81, No. 9
0022-538X/07/$08.00+0     doi:10.1128/JVI.01954-06
Copyright © 2007, American Society for Microbiology. All Rights Reserved.

Clade-Specific Differences between Human Immunodeficiency Virus Type 1 Clades B and C: Diversity and Correlations in C3-V4 Regions of gp120{triangledown}

S. Gnanakaran,1 Dorothy Lang,1,{dagger} Marcus Daniels,1 Tanmoy Bhattacharya,1,2 Cynthia A. Derdeyn,3,4,5 and Bette Korber1,2*

Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545,1 Santa Fe Institute, Santa Fe, New Mexico 87501,2 Department of Pathology and Laboratory Medicine,3 Yerkes National Primate Research Center,4 Emory Vaccine Center, Emory University, Atlanta, Georgia 303295

Received 7 September 2006/ Accepted 7 December 2006

Current knowledge of human immunodeficiency virus type 1 envelope (Env) glycoprotein structure and function is based on studies of clade B viruses. We present evidence of sequence and structural differences in viral glycoprotein gp120 between clades B and C. In clade C, the C3 region {alpha}2-helix exhibits high sequence entropy at the polar face but maintains its amphipathicity, whereas in clade B it accommodates hydrophobic residues. The V4 hypervariable domain in clade C is shorter than that in clade B. Generally, shorter V4 loops are incompatible with a glycine occurring in the {alpha}2-helix in clade C, an intriguing association that could be exploited to inform Env immunogen design.

* Corresponding author. Mailing address: T10 MS K710, Los Alamos National Laboratory, Los Alamos, NM 87545. Phone: (505) 665-4453. Fax: (505) 665-3493. E-mail: btk{at}lanl.gov

{triangledown} Published ahead of print on 13 December 2007.

{dagger} Present address: Biosciences and Biotechnology Division, CMLS Directorate, Lawrence Livermore National Laboratory, Livermore, CA 94550.

Journal of Virology, May 2007, p. 4886-4891, Vol. 81, No. 9
0022-538X/07/$08.00+0     doi:10.1128/JVI.01954-06
Copyright © 2007, American Society for Microbiology. All Rights Reserved.



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