GB Virus C/Hepatitis G Virus Envelope Glycoprotein E2: Computational Molecular Features and Immunoinformatics Study

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To Cite : Ranjbar M M, Ghorban K, Alavian S M, Keyvani H, Dadmanesh M, et al. GB Virus C/Hepatitis G Virus Envelope Glycoprotein E2: Computational Molecular Features and Immunoinformatics Study, Hepat Mon. 2013 ;13(12):e15342. doi: 10.5812/hepatmon.15342.
Copyright: Copyright © 2013, Hepatitis Monthly. This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial 4.0 International License (http://creativecommons.org/licenses/by-nc/4.0/) which permits copy and redistribute the material just in noncommercial usages, provided the original work is properly cited..
Abstract
1. Introduction
2. Evidence Acquisition
3. Results
5. Discussion
Acknowledgements
Footnotes
References
  • 1. Linnen J, Wages J, Jr, Zhang-Keck ZY, Fry KE, Krawczynski KZ, Alter H, et al. Molecular cloning and disease association of hepatitis G virus: a transfusion-transmissible agent. Science. 1996; 271(5248): 505-8[PubMed]
  • 2. Stapleton JT, Foung S, Muerhoff AS, Bukh J, Simmonds P. The GB viruses: a review and proposed classification of GBV-A, GBV-C (HGV), and GBV-D in genus Pegivirus within the family Flaviviridae. J Gen Virol. 2011; 92: 233-46[DOI][PubMed]
  • 3. Naito H, Abe K. Genotyping system of GBV-C/HGV type 1 to type 4 by the polymerase chain reaction using type-specific primers and geographical distribution of viral genotypes. J Virol Methods. 2001; 91(1): 3-9[PubMed]
  • 4. Berzsenyi MD, Bowden DS, Roberts SK. GB virus C: insights into co-infection. J Clin Virol. 2005; 33(4): 257-66[DOI][PubMed]
  • 5. Fallahian F, Alavian SM, Rasoulinejad M. Epidemiology and transmission of hepatitis G virus infection in dialysis patients. Saudi J Kidney Dis Transpl. 2010; 21(5): 831-4[PubMed]
  • 6. Alavian SM, Adibi P, Zali MR. Hepatitis C virus in Iran: Epidemiology of an emerging infection. Arch Iranian Med. 2005; 8(2): 84-90
  • 7. Tillmann HL, Heiken H, Knapik-Botor A, Heringlake S, Ockenga J, Wilber JC, et al. Infection with GB virus C and reduced mortality among HIV-infected patients. N Engl J Med. 2001; 345(10): 715-24[DOI][PubMed]
  • 8. Xiang J, Wunschmann S, Diekema DJ, Klinzman D, Patrick KD, George SL, et al. Effect of coinfection with GB virus C on survival among patients with HIV infection. N Engl J Med. 2001; 345(10): 707-14[DOI][PubMed]
  • 9. Lau JY, Qian K, Detmer J, Collins ML, Orito E, Kolberg JA, et al. Effect of interferon-alpha and ribavirin therapy on serum GB virus C/hepatitis G virus (GBV-C/HGV) RNA levels in patients chronically infected with hepatitis C virus and GBV-C/HGV. J Infect Dis. 1997; 176(2): 421-6[PubMed]
  • 10. Alvarado-Mora MV, Botelho L, Nishiya A, Neto RA, Gomes-Gouvea MS, Gutierrez MF, et al. Frequency and genotypic distribution of GB virus C (GBV-C) among Colombian population with Hepatitis B (HBV) or Hepatitis C (HCV) infection. Virol J. 2011; 8: 345[DOI][PubMed]
  • 11. Choo QL, Kuo G, Ralston R, Weiner A, Chien D, Van Nest G, et al. Vaccination of chimpanzees against infection by the hepatitis C virus. Proc Natl Acad Sci U S A. 1994; 91(4): 1294-8[PubMed]
  • 12. Yan Q. Bioinformatics databases and tools in virology research: an overview. In Silico Biol. 2008; 8(2): 71-85[PubMed]
  • 13. Sollner J, Grohmann R, Rapberger R, Perco P, Lukas A, Mayer B. Analysis and prediction of protective continuous B-cell epitopes on pathogen proteins. Immunome Res. 2008; 4: 1[DOI][PubMed]
  • 14. Yang X, Yu X. An introduction to epitope prediction methods and software. Rev Med Virol. 2009; 19(2): 77-96[DOI][PubMed]
  • 15. Vigerust DJ, Shepherd VL. Virus glycosylation: role in virulence and immune interactions. Trends Microbiol. 2007; 15(5): 211-8[DOI][PubMed]
  • 16. Wan J, Roth AF, Bailey AO, Davis NG. Palmitoylated proteins: purification and identification. Nat Protoc. 2007; 2(7): 1573-84[DOI][PubMed]
  • 17. Draper JM, Xia Z, Smith CD. Cellular palmitoylation and trafficking of lipidated peptides. J Lipid Res. 2007; 48(8): 1873-84[DOI][PubMed]
  • 18. Chakrabandhu K, Herincs Z, Huault S, Dost B, Peng L, Conchonaud F, et al. Palmitoylation is required for efficient Fas cell death signaling. EMBO J. 2007; 26(1): 209-20[DOI][PubMed]
  • 19. Ingrell CR, Miller ML, Jensen ON, Blom N. NetPhosYeast: prediction of protein phosphorylation sites in yeast. Bioinformatics. 2007; 23(7): 895-7[DOI][PubMed]
  • 20. Eyrich VA, Marti-Renom MA, Przybylski D, Madhusudhan MS, Fiser A, Pazos F, et al. EVA: continuous automatic evaluation of protein structure prediction servers. Bioinformatics. 2001; 17(12): 1242-3[PubMed]
  • 21. Rychlewski L, Fischer D. LiveBench-8: the large-scale, continuous assessment of automated protein structure prediction. Protein Sci. 2005; 14(1): 240-5[DOI][PubMed]
  • 22. Cheng J, Randall AZ, Sweredoski MJ, Baldi P. SCRATCH: a protein structure and structural feature prediction server. Nucleic Acids Res. 2005; 33-6[DOI][PubMed]
  • 23. Idrees S, Ashfaq UA, Khaliq S. HCV Envelope protein 2 sequence comparison of Pakistani isolate and In-silico prediction of conserved epitopes for vaccine development. J Transl Med. 2013; 11: 105[DOI][PubMed]
  • 24. Sautto G, Tarr AW, Mancini N, Clementi M. Structural and antigenic definition of hepatitis C virus E2 glycoprotein epitopes targeted by monoclonal antibodies. Clin Dev Immunol. 2013; 2013: 450963[DOI][PubMed]
  • 25. McCaffrey K, Gouklani H, Boo I, Poumbourios P, Drummer HE. The variable regions of hepatitis C virus glycoprotein E2 have an essential structural role in glycoprotein assembly and virion infectivity. J Gen Virol. 2011; 92: 112-21[DOI][PubMed]
  • 26. The Bioinformatics Analysis of Hepatitis C Virus E2 Protein.; Advances in Intelligent Systems Research. : 1875-6883
  • 27. Mondelli MU, Cerino A, Meola A, Nicosia A. Variability or conservation of hepatitis C virus hypervariable region 1? Implications for immune responses. J Biosci. 2003; 28(3): 305-10[PubMed]
  • 28. Petit MA, Jolivet-Reynaud C, Peronnet E, Michal Y, Trepo C. Mapping of a conformational epitope shared between E1 and E2 on the serum-derived human hepatitis C virus envelope. J Biol Chem. 2003; 278(45): 44385-92[DOI][PubMed]
  • 29. Krogh A, Larsson B, von Heijne G, Sonnhammer EL. Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J Mol Biol. 2001; 305(3): 567-80[DOI][PubMed]
  • 30. Pelte C, Cherepnev G, Wang Y, Schoenemann C, Volk HD, Kern F. Random screening of proteins for HLA-A*0201-binding nine-amino acid peptides is not sufficient for identifying CD8 T cell epitopes recognized in the context of HLA-A*0201. J Immunol. 2004; 172(11): 6783-9[PubMed]
  • 31. Kolaskar AS, Tongaonkar PC. A semi-empirical method for prediction of antigenic determinants on protein antigens. FEBS Lett. 1990; 276(1-2): 172-4[PubMed]
  • 32. Saha S, Raghava GPS. BcePred: Prediction of continuous B-cell epitopes in antigenic sequences using physico-chemical properties. Artificial Immune Systems.: 2004; : 197-204
  • 33. Larsen JE, Lund O, Nielsen M. Improved method for predicting linear B-cell epitopes. Immunome Res. 2006; 2: 2[DOI][PubMed]
  • 34. Saha S, Raghava GP. Prediction of continuous B-cell epitopes in an antigen using recurrent neural network. Proteins. 2006; 65(1): 40-8[DOI][PubMed]
  • 35. El-Manzalawy Y, Dobbs D, Honavar V. Predicting linear B-cell epitopes using string kernels. J Mol Recognit. 2008; 21(4): 243-55[DOI][PubMed]
  • 36. Lovell SC, Davis IW, Arendall WB, 3rd, 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]
  • 37. Leary TP, Muerhoff AS, Simons JN, Pilot-Matias TJ, Erker JC, Chalmers ML, et al. Sequence and genomic organization of GBV-C: a novel member of the flaviviridae associated with human non-A-E hepatitis. J Med Virol. 1996; 48(1): 60-7[DOI][PubMed]
  • 38. Ogata N, Alter HJ, Miller RH, Purcell RH. Nucleotide sequence and mutation rate of the H strain of hepatitis C virus. Proc Natl Acad Sci U S A. 1991; 88(8): 3392-6[PubMed]
  • 39. Okamoto H, Kojima M, Okada S, Yoshizawa H, Iizuka H, Tanaka T, et al. Genetic drift of hepatitis C virus during an 8.2-year infection in a chimpanzee: variability and stability. Virology. 1992; 190(2): 894-9[PubMed]
  • 40. Manzin A, Solforosi L, Petrelli E, Macarri G, Tosone G, Piazza M, et al. Evolution of hypervariable region 1 of hepatitis C virus in primary infection. J Virol. 1998; 72(7): 6271-6[PubMed]
  • 41. Farci P, Shimoda A, Coiana A, Diaz G, Peddis G, Melpolder JC, et al. The outcome of acute hepatitis C predicted by the evolution of the viral quasispecies. Science. 2000; 288(5464): 339-44[PubMed]
  • 42. Kato T, Furusaka A, Miyamoto M, Date T, Yasui K, Hiramoto J, et al. Sequence analysis of hepatitis C virus isolated from a fulminant hepatitis patient. J Med Virol. 2001; 64(3): 334-9[PubMed]
  • 43. Ducoulombier D, Roque-Afonso AM, Di Liberto G, Penin F, Kara R, Richard Y, et al. Frequent compartmentalization of hepatitis C virus variants in circulating B cells and monocytes. Hepatology. 2004; 39(3): 817-25[DOI][PubMed]
  • 44. Puntoriero G, Meola A, Lahm A, Zucchelli S, Ercole BB, Tafi R, et al. Towards a solution for hepatitis C virus hypervariability: mimotopes of the hypervariable region 1 can induce antibodies cross-reacting with a large number of viral variants. EMBO J. 1998; 17(13): 3521-33[DOI][PubMed]
  • 45. Jusoh SA, Welsch C, Siu SW, Bockmann RA, Helms V. Contribution of charged and polar residues for the formation of the E1-E2 heterodimer from Hepatitis C Virus. J Mol Model. 2010; 16(10): 1625-37[DOI][PubMed]
  • 46. Cocquerel L, Wychowski C, Minner F, Penin F, Dubuisson J. Charged residues in the transmembrane domains of hepatitis C virus glycoproteins play a major role in the processing, subcellular localization, and assembly of these envelope proteins. J Virol. 2000; 74(8): 3623-33[PubMed]
  • 47. Ciczora Y, Callens N, Penin F, Pecheur EI, Dubuisson J. Transmembrane domains of hepatitis C virus envelope glycoproteins: residues involved in E1E2 heterodimerization and involvement of these domains in virus entry. J Virol. 2007; 81(5): 2372-81[DOI][PubMed]
  • 48. Veit M, Schmidt MF. Palmitoylation of influenza virus proteins. Berl Munch Tierarztl Wochenschr. 2006; 119(3-4): 112-22[PubMed]
  • 49. Goffard A, Dubuisson J. Glycosylation of hepatitis C virus envelope proteins. Biochimie. 2003; 85(3-4): 295-301[PubMed]
  • 50. 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[DOI][PubMed]
  • 51. Abro SH, Ullman K, Belak S, Baule C. Bioinformatics and evolutionary insight on the spike glycoprotein gene of QX-like and Massachusetts strains of infectious bronchitis virus. Virol J. 2012; 9: 211[DOI][PubMed]
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