Archives of Clinical Infectious Diseases

Published by: Kowsar

Immunoinformatics Study of gp120 of Human Immunodeficiency Virus Type 1 Subtype CRF35_AD Isolated from Iranian Patients

Hossein Keyvani 1 , Nayeb Ali Ahmadi 2 , * , Mohammad Mehdi Ranjbar 3 , Saeid Ataei Kachooei 3 , Khodayar Ghorban 4 and Maryam Dadmanesh 5
Authors Information
1 Department of Virology, Iran University of Medical Sciences, Tehran, IR Iran
2 Proteomics Research Center, Department of Medical Lab Technology, Faculty of Paramedical Sciences, Shahid Beheshti University of Medical Sciences, Tehran, IR Iran
3 Department of Immunology, Razi Vaccine and Sera Research Instute, Karaj, IR Iran
4 Department of Immunology, School of Medicine, AJA University of Medical Sciences, Tehran, IR Iran
5 Department Infectious Diseases, School of Medicine, AJA University of Medical Sciences, Tehran, IR Iran
Article information
  • Archives of Clinical Infectious Diseases: October 01, 2016, 11 (4); e36270
  • Published Online: August 21, 2016
  • Article Type: Research Article
  • Received: January 15, 2016
  • Revised: July 19, 2016
  • Accepted: August 2, 2016
  • DOI: 10.5812/archcid.36270

To Cite: Keyvani H, Ahmadi N A, Ranjbar M M, Ataei Kachooei S, Ghorban K, et al. Immunoinformatics Study of gp120 of Human Immunodeficiency Virus Type 1 Subtype CRF35_AD Isolated from Iranian Patients, Arch Clin Infect Dis. 2016 ; 11(4):e36270. doi: 10.5812/archcid.36270.

Copyright © 2016, Infectious Diseases and Tropical Medicine Research Center. This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial 4.0 International License ( which permits copy and redistribute the material just in noncommercial usages, provided the original work is properly cited.
1. Background
2. Objectives
3. Methods
4. Results
5. Discussion
  • 1. Weiss RA. How does HIV cause AIDS? Science. 1993; 260(5112): 1273-9[PubMed]
  • 2. Douek DC, Roederer M, Koup RA. Emerging concepts in the immunopathogenesis of AIDS. Annu Rev Med. 2009; 60: 471-84[DOI][PubMed]
  • 3. Modjarrad K, Mohraz M, Madani N. AIDS epidemic: Iran needs global support to fight HIV. Nature. 2013; 494(7437): 314[DOI][PubMed]
  • 4. Haghdoost AA, Mostafavi E, Mirzazadeh A, Navadeh S, Feizzadeh A, Fahimfar N, et al. Modelling of HIV/AIDS in Iran up to 2014. J AIDS HIV Res. 2011; 3(12): 231-9[DOI]
  • 5. Rahimi-Movaghar A, Amin-Esmaeili M, Haghdoost AA, Sadeghirad B, Mohraz M. HIV prevalence amongst injecting drug users in Iran: a systematic review of studies conducted during the decade 1998-2007. Int J Drug Policy. 2012; 23(4): 271-8[DOI][PubMed]
  • 6. Jahanbakhsh F, Ibe S, Hattori J, Monavari SH, Matsuda M, Maejima M, et al. Molecular epidemiology of HIV type 1 infection in Iran: genomic evidence of CRF35_AD predominance and CRF01_AE infection among individuals associated with injection drug use. AIDS Res Hum Retroviruses. 2013; 29(1): 198-203[DOI][PubMed]
  • 7. Hallenberger S, Bosch V, Angliker H, Shaw E, Klenk HD, Garten W. Inhibition of furin-mediated cleavage activation of HIV-1 glycoprotein gp160. Nature. 1992; 360(6402): 358-61[DOI][PubMed]
  • 8. de Witte L, Bobardt M, Chatterji U, Degeest G, David G, Geijtenbeek TB, et al. Syndecan-3 is a dendritic cell-specific attachment receptor for HIV-1. Proc Natl Acad Sci U S A. 2007; 104(49): 19464-9[DOI][PubMed]
  • 9. Doms RW, Moore JP. HIV-1 membrane fusion: targets of opportunity. J Cell Biol. 2000; 151(2): 9-14[PubMed]
  • 10. Madsen J, Kliem A, Tornoe I, Skjodt K, Koch C, Holmskov U. Localization of lung surfactant protein D on mucosal surfaces in human tissues. J Immunol. 2000; 164(11): 5866-70[PubMed]
  • 11. Chirmule N, Pahwa S. Envelope glycoproteins of human immunodeficiency virus type 1: profound influences on immune functions. Microbiol Rev. 1996; 60(2): 386-406[PubMed]
  • 12. Nara PL, Garrity RR, Goudsmit J. Neutralization of HIV-1: a paradox of humoral proportions. FASEB J. 1991; 5(10): 2437-55[PubMed]
  • 13. Stamatatos L, Cheng-Mayer C. Evidence that the structural conformation of envelope gp120 affects human immunodeficiency virus type 1 infectivity, host range, and syncytium-forming ability. J Virol. 1993; 67(9): 5635-9[PubMed]
  • 14. Levy JA. Pathogenesis of human immunodeficiency virus infection. Microbiol Rev. 1993; 57(1): 183-289[PubMed]
  • 15. Groenink M, Fouchier RA, Broersen S, Baker CH, Koot M, van't Wout AB, et al. Relation of phenotype evolution of HIV-1 to envelope V2 configuration. Science. 1993; 260(5113): 1513-6[PubMed]
  • 16. Paital B, Kumar S, Farmer R, Tripathy NK, Chainy GB. In silico prediction and characterization of 3D structure and binding properties of catalase from the commercially important crab, Scylla serrata. Interdiscip Sci. 2011; 3(2): 110-20[DOI][PubMed]
  • 17. Tramontano A, Leplae R, Morea V. Analysis and assessment of comparative modeling predictions in CASP4. Proteins. 2001; : 22-38[PubMed]
  • 18. Jeffs SA, Shotton C, Balfe P, McKeating JA. Truncated gp120 envelope glycoprotein of human immunodeficiency virus 1 elicits a broadly reactive neutralizing immune response. J Gen Virol. 2002; 83: 2723-32[DOI][PubMed]
  • 19. Thompson JD, Higgins DG, Gilbson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nuleic Acids Res. 1994; 22: 4673-80
  • 20. Shannon CE. A mathematical theory of communication. Bell Sys Tech J. 1948; 27: 623-56
  • 21. Simpson EH. Measurement of Diversity. Nature. 1949; 163: 688
  • 22. Kabat EA, Wu TT, Bilofsky H. Unusual distributions of amino acids in complementarity-determining (hypervariable) segments of heavy and light chains of immunoglobulins and their possible roles in specificity of antibody-combining sites. J Biol Chem. 1977; 252(19): 6609-16[PubMed]
  • 23. Garcia Boronat M, Diez Rivero CM, Reinherz EL, Reche PA. PVS: a web server for protein sequence variability analysis tuned to facilitate conserved epitope discovery. Nucleic Acids Res. 2008; 36(2): 35-41
  • 24. Zhang M, Gaschen B, Blay W, Foley B, Haigwood N, Kuiken C, et al. Tracking global patterns of N-linked glycosylation site variation in highly variable viral glycoproteins: HIV, SIV, and HCV envelopes and influenza hemagglutinin. Glycobiology. 2004; 14(12): 1229-46
  • 25. Lovell SC, Davis IW, Arendall W3, de Bakker PI, Word JM, Prisant MG, et al. Structure validation by Calpha geometry: phi,psi and Cbeta deviation. Proteins. 2003; 50(3): 437-50[DOI][PubMed]
  • 26. BcePred: prediction of continuous B-cell epitopes in antigenic sequences using physico-chemical properties. International Conference on Artificial Immune Systems. : 197-204
  • 27. Center for Disease Control . Ministry of Health and Medical Education of the I.R. Iran. HIV/AIDS in Iran (Cumulative Statistics).[In persian]. 2003;
  • 28. American Iranian Council: Drug Use and HIV/AIDS in Iran.
  • 29. Wyatt R, Kwong PD, Desjardins E, Sweet RW, Robinson J, Hendrickson WA, et al. The antigenic structure of the HIV gp120 envelope glycoprotein. Nature. 1998; 393(6686): 705-11[DOI][PubMed]
  • 30. Novitsky V, Lagakos S, Herzig M, Bonney C, Kebaabetswe L, Rossenkhan R, et al. Evolution of proviral gp120 over the first year of HIV-1 subtype C infection. Virology. 2009; 383(1): 47-59[DOI][PubMed]
  • 31. Yao N, Zhang C, Liu Q, Liu J, Zhang C. Polymorphism characteristics of HIV-1 gpl20 and 5 hypervariable regions. Turk J Med Sci. 2015; 45(1): 47-54[PubMed]
  • 32. Simmonds P, Balfe P, Ludlam CA, Bishop JO, Brown AJ. Analysis of sequence diversity in hypervariable regions of the external glycoprotein of human immunodeficiency virus type 1. J Virol. 1990; 64(12): 5840-50[PubMed]
  • 33. Leitner T. Genetic subtypes of HIV-1. 1997;
  • 34. Leth-Larsen R, Floridon C, Nielsen O, Holmskov U. Surfactant protein D in the female genital tract. Mol Hum Reprod. 2004; 10(3): 149-54[DOI][PubMed]
  • 35. Liu Y, Curlin ME, Diem K, Zhao H, Ghosh AK, Zhu H, et al. Env length and N-linked glycosylation following transmission of human immunodeficiency virus Type 1 subtype B viruses. Virology. 2008; 374(2): 229-33[DOI][PubMed]
  • 36. Frost SD, Wrin T, Smith DM, Kosakovsky Pond SL, Liu Y, Paxinos E, et al. Neutralizing antibody responses drive the evolution of human immunodeficiency virus type 1 envelope during recent HIV infection. Proc Natl Acad Sci U S A. 2005; 102(51): 18514-9[DOI][PubMed]
  • 37. Zhou T, Xu L, Dey B, Hessell AJ, Van Ryk D, Xiang SH, et al. Structural definition of a conserved neutralization epitope on HIV-1 gp120. Nature. 2007; 445(7129): 732-7[DOI][PubMed]
  • 38. Yan Q. Bioinformatics databases and tools in virology research: an overview. In Silico Biol. 2008; 8(2): 71-85[PubMed]
  • 39. Azizi A, Anderson DE, Torres JV, Ogrel A, Ghorbani M, Soare C, et al. Induction of broad cross-subtype-specific HIV-1 immune responses by a novel multivalent HIV-1 peptide vaccine in cynomolgus macaques. J Immunol. 2008; 180(4): 2174-86[PubMed]
Creative Commons License Except where otherwise noted, this work is licensed under Creative Commons Attribution Non Commercial 4.0 International License .

Search Relations:



Create Citiation Alert
via Google Reader

Readers' Comments