Envelope 2 protein phosphorylation sites S75 & 277 of hepatitis C virus genotype 1a and interferon resistance: A sequence alignment approach

Virology Journal

Volumn 8, Issue , 2011, Pages

  Afzal, Samia ^a   Idrees, Muhammad ^a   Ali, Muhammad ^a   Ilyas, Muhammad ^a   Hussain, Abrar ^a   Akram, Madiha ^a   Butt, Sadia ^a   Saleem, Sana ^a   Rehman, Irshad Ur ^a   Ali, Liaqat ^a   Shahid, Muhammad ^a  

^a UNIVERSITY OF THE PUNJAB   (Pakistan)

Author keywords

[No Author keywords available]

Indexed keywords

DOUBLE STRANDED RNA; INTERFERON; PROTEIN KINASE R; SERINE; THREONINE; VIRUS ENVELOPE PROTEIN; VIRUS RNA; ALPHA INTERFERON; GLYCOPROTEIN E2, HEPATITIS C VIRUS; VIRULENCE FACTOR;

ARTICLE; DIMERIZATION; ENZYME INHIBITION; EXPRESSION VECTOR; GENOTYPE; HEPATITIS C VIRUS; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PROTEIN PHOSPHORYLATION; PROTEIN SYNTHESIS INHIBITION; SEQUENCE ALIGNMENT; VIRAL GENETICS; VIRUS RESISTANCE; HUMAN; IMMUNOLOGY; METABOLISM; PAKISTAN; PATHOGENICITY; PHOSPHORYLATION;

HEPATITIS C VIRUS; HEPATITIS C VIRUS GENOTYPE 1;

HEPACIVIRUS; HUMANS; INTERFERON-ALPHA; PAKISTAN; PHOSPHORYLATION; SEQUENCE ALIGNMENT; VIRAL ENVELOPE PROTEINS; VIRULENCE FACTORS;

EID: 79851512166     PISSN: None     EISSN: 1743422X     Source Type: Journal    
DOI: 10.1186/1743-422X-8-71     Document Type: Article

References (41)

1. Prevalence of HCV and HIV infections in 2005-Earthquake-affected areas of Pakistan. S Khan MA Rai A Khan A Farooqui SU Kazmi SH Ali, BMC Infect Dis 2008 8 147 10.1186/1471-2334-8-147 18954443
2. Epidemiology of hepatitis C virus infection. MJ (Pubitemid 46929498)
3. Hepatitis C and liver transplantation. RS Brown, Nature 2005 436 973 978 10.1038/nature04083 16107838
4. Global epidemiology of hepatitis C virus infection. CW Shepard L Finelli MJ Alter, Lancet Infect Dis 2005 5 558 567 10.1016/S1473-3099(05)70216-4 16122679 (Pubitemid 41196755)
5. High prevalence of hepatitis C virus infection in the largest province of Pakistan. M Idrees A Lal M Naseem M Khalid, J Dig Dis 2008 9 95 103 10.1111/j.1751-2980.2008.00329.x 18419643 (Pubitemid 351566631)
6. Replication of hepatitis C virus. R Bartenschlager V Lohmann, J Gen Virol 2000 81 1631 1648 10859368 (Pubitemid 30427068)
7. Effect of Heptitis C Virus Core Protein on Cellular Gene Expression: Specific Inhibition of Cyclooxygenase 2. R Jhaveri P Kundu AM Shapiro A Venkatesan A Dasgupta, The Journal of Infectious Diseases 2005 191 1498 506 10.1086/429301 15809909 (Pubitemid 40563362)
8. Molecular virology of hepatitis C virus (HCV): 2006 update. V Brass D Moradpour HE Blum, Int J Med Sci 2006 3 29 34 16614739
9. Structural biology of hepatitis C virus. F Penin J Dubuisson FA Rey D Moradpour JM Pawlotsky, Hepatology 2004 39 5 19 10.1002/hep.20032 14752815 (Pubitemid 38461460)
10. Mechanism of cell infection with hepatitis C virus (HCV) - a new paradigm in virus-cell interaction. A Budkowska, Pol J Microbiol 2009 58 93 98 19824391
11. Optimal therapy of hepatitis C. AM Di Bisceglie JH Hoofnagle, Hepatology 2002 36 121 127 10.1002/hep.1840360716 12407585
12. Peginterferon-alpha-2a (40 kD) plus ribavirin: a review of its use in the management of chronic hepatitis C mono-infection. SJ Keam RS Cvetkovic, Drugs 2008 68 1273 1317 10.2165/00003495-200868090-00006 18547135 (Pubitemid 351822114)
13. The interferon antiviral response: from viral invasion to evasion. N Grandvaux BR tenOever MJ Servant J Hiscott, Curr Opin Infect Dis 2002 15 259 267 12015460 (Pubitemid 34548188)
14. Viruses and interferon: a fight for supremacy. MG Katze Y He M Gale, Nat Rev Immunol 2002 2 675 687 10.1038/nri888 12209136 (Pubitemid 37328725)
15. Interferon-alpha inhibits hepatitis C virus subgenomic RNA replication by an MxA-independent pathway. M Frese T Pietschmann D Moradpour O Haller R Bartenschlager, J Gen Virol 2001 82 723 733 11257176 (Pubitemid 32280029)
16. Hepatitis C virus infection. GM Lauer BD Walker, N Engl J Med 2001 345 41 52 10.1056/NEJM200107053450107 11439948 (Pubitemid 32634271)
17. Interferons alpha and lambda inhibit hepatitis C virus replication with distinct signal transduction and gene regulation kinetics. T Marcello A Grakoui G Barba-Spaeth ES Machlin SV Kotenko MR MacDonald CM Rice, Gastroenterology 2006 131 1887 1898 10.1053/j.gastro.2006.09.052 17087946 (Pubitemid 44958521)
18. The transcriptome of HCV replicon expressing cell lines in the presence of alpha interferon. J Hayashi R Stoyanova C Seeger, Virology 2005 335 264 275 10.1016/j.virol.2005.02.018 15840525 (Pubitemid 40544915)
19. CD81-dependent binding of hepatitis C virus E1E2 heterodimers. L Cocquerel CC Kuo J Dubuisson S Levy, J Virol 2003 77 10677 10683 10.1128/JVI.77.19.10677-10683.2003 12970454 (Pubitemid 37129713)
20. Analysis of a successful immune response against hepatitis C virus. S Cooper AL Erickson EJ Adams J Kansopon AJ Weiner DY Chien M Houghton P Parham CM Walker, Immunity 1999 10 439 449 10.1016/S1074-7613(00)80044-8 10229187 (Pubitemid 29205480)
21. Efficient trans-encapsidation of hepatitis C virus RNAs into infectious virus-like particles. E Steinmann C Brohm S Kallis R Bartenschlager T Pietschmann, J Virol 2008 82 7034 7046 10.1128/JVI.00118-08 18480457 (Pubitemid 351977723)
22. The Double-stranded RNA-activated Protein Kinase PKR. RJ Kaufman, Translational Control of Gene Expression Cold Spring Harbor Laboratory Press 2 2000 39 503 527
23. Viral translational strategies and host defense mechanisms. T Pe'ery MB Mathews, Translational Control of Gene Expression Cold Spring Harbor Laboratory Press 2 2000 39 371 424
24. Evidence that hepatitis C virus resistance to interferon is mediated through repression of the PKR protein kinase by the nonstructural 5A protein. M Gale Jr MJ Korth NM Tang SL Tan DA Hopkins TE Dever SJ Polyak DR Gretch MG Katze, Virology 1997 230 217 227 10.1006/viro.1997.8493 9143277 (Pubitemid 27211852)
25. Inhibition of the interferon-inducible protein kinase PKR by HCV E2 protein. DR Taylor ST Shi PR Romano GN Barber MM Lai, Science 1999 285 107 110 10.1126/science.285.5424.107 10390359 (Pubitemid 29307576)
26. Ultra-structural localisation of hepatocellular PKR protein using immuno-gold labelling in chronic hepatitis C virus disease. GC MacQuillan P Caterina B de Boer JE Allan MA Platten WD Reed GP Jeffrey, J Mol Histol 2009 40 171 176 10.1007/s10735-009-9227-0 19642004
27. How cells respond to interferons. GR Stark IM Kerr BR Williams RH Silverman RD Schreiber, Annu Rev Biochem 1998 67 227 264 10.1146/annurev. biochem.67.1.227 9759489 (Pubitemid 28411130)
28. Control of PKR protein kinase by hepatitis C virus nonstructural 5A protein: molecular mechanisms of kinase regulation. M Gale Jr CM Blakely B Kwieciszewski SL Tan M Dossett NM Tang MJ Korth SJ Polyak DR Gretch MG Katze, Mol Cell Biol 1998 18 5208 5218 9710605 (Pubitemid 28388104)
29. Sequence and structure-based prediction of eukaryotic protein phosphorylation sites. N Blom S Gammeltoft S Brunak, J Mol Biol 1999 294 1351 1362 10.1006/jmbi.1999.3310 10600390 (Pubitemid 30008805)
30. Scansite 2.0: Proteome-wide prediction of cell signaling interactions using short sequence motifs. JC Obenauer LC Cantley MB Yaffe, Nucleic Acids Res 2003 31 3635 3641 10.1093/nar/gkg584 12824383 (Pubitemid 37442212)
31. UCSF Chimera - a visualization system for exploratory research and analysis. EF Pettersen TD Goddard CC Huang GS Couch DM Greenblatt EC Meng TE Ferrin, J Comput Chem 2004 25 1605 1612 10.1002/jcc.20084 15264254
32. SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling. N Guex MC Peitsch, Electrophoresis 1997 18 2714 2723 10.1002/elps.1150181505 9504803 (Pubitemid 28059943)
33. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. JD Thompson DG Higgins TJ Gibson, Nucleic Acids Res 1994 22 4673 4680 10.1093/nar/22.22.4673 7984417 (Pubitemid 24354800)
34. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Felsenstein, J Mol Evol 1981 17 368 376 10.1007/BF01734359 7288891 (Pubitemid 11016207)
35. I-TASSER server for protein 3D structure prediction. Y Zhang, BMC Bioinformatics 2008 9 40 10.1186/1471-2105-9-40 18215316
36. Mutations within the hepatitis C virus genotype 1b E2-PePHD domain do not correlate with treatment outcome. C Gaudy M Lambele A Moreau P Veillon F Lunel A Goudeau, J Clin Microbiol 2005 43 750 754 10.1128/JCM.43.2.750-754.2005 15695675 (Pubitemid 40256030)
37. Pegylated interferon alfa-2b (PEG-INTRON) monotherapy is superior to interferon alfa-2b (INTRON A) for the treatment of chronic hepatitis C. C LK Trepo C Niederau, et al. J Hepatol 2000 32 29 10.1016/S0168-8278(00)80446-8
38. Peginterferon alfa-2a in patients with chronic hepatitis C. S Zeuzem SV Feinman J Rasenack EJ Heathcote MY Lai E Gane J O'Grady J Reichen M Diago A Lin, et al. N Engl J Med 2000 343 1666 1672 10.1056/NEJM200012073432301 11106715
39. Association of amino acid sequence in the PKR-eIF2 phosphorylation homology domain and response to interferon therapy. K Chayama F Suzuki A Tsubota M Kobayashi Y Arase S Saitoh Y Suzuki N Murashima K Ikeda N Takahashi, et al. Hepatology 2000 32 1138 1144 10.1053/jhep.2000.19364 11050067
40. Effect of alpha interferon on the hepatitis C virus replicon. JT Guo VV Bichko C Seeger, J Virol 2001 75 8516 8523 10.1128/JVI.75.18.8516-8523.2001 11507197 (Pubitemid 32768956)
41. MB Mathews JWB Hershey N Sonenberg, Translational Control NY.: Cold Spring Harbor Laboratory Press, Cold Spring Harbor 1996