Skip to main content
Book cover

Hepatitis C pp 125–143Cite as

Structural and Functional Analysis of the HCV p7 Protein

  • Protocol

Part of the book series: Methods in Molecular Biology™ ((MIMB,volume 510))

Abstract

The p7 membrane polypeptide from HCV is essential for virus infection. It exhibits ion-channel activity reported to be specifically blocked by various compounds. These properties make p7 an attractive candidate target for antiviral intervention to combat viral hepatitis C infection. In this context, in vitro functional analyses of isolated p7 coupled to structural characterization are critical for further understanding of the molecular mechanisms of p7 ion-channel activity and for the development of new antiviral drugs. We present here in vitro assays designed to purify synthetic p7 by RP-HPLC, to investigate its ion-channel properties by means of planar lipid-bilayer assays and patch-clamp recordings after reconstitution into liposomes, and to analyze its structural features by circular dichroism (CD), nuclear magnetic resonance (NMR), and molecular dynamics (MD).

This is a preview of subscription content, log in via an institution.

Buying options

Protocol
USD   49.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD   84.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD   159.00
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD   109.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Learn about institutional subscriptions

Springer Nature is developing a new tool to find and evaluate Protocols. Learn more

References

  1. Sakai, A., St. Claire, M., Faulk, K., Govindarajan, S., Emerson, S. U., Purcell, R. H., et al. (2003) The p7 polypeptide of hepatitis C virus is critical for infectivity and contains functionally important genotype-specific sequences. Proc. Natl. Acad. Sci. USA 100, 11646–11651.

    Article  CAS  PubMed  Google Scholar 

  2. Lohmann, V., Körner, F., Koch, J. O., Herian, U., Theilmann, L., and Bartenschlager, R. (1999) Replication of subgenomic hepatitis C virus RNAs in a hepatoma cell line. Science 285, 110–113.

    Article  CAS  PubMed  Google Scholar 

  3. Carrère-Kremer, S., Montpellier-Pala, C., Cocquerel, L., Wychowski, C., Penin, F., and Dubuisson, J. (2002) Subcellular localization and topology of the p7 polypeptide of hepatitis C virus. J. Virol. 76, 3720–3730.

    Article  PubMed  Google Scholar 

  4. Griffin, S. D. C., Beales, L. P., Clarke, D. S., Worsfold, O., Evans, S. D., Jaeger, J., et al. (2003) The p7 protein of hepatitis C virus forms an ion channel that is blocked by the antiviral drug, Amantadine. FEBS Lett. 535, 34–38.

    Article  CAS  PubMed  Google Scholar 

  5. Clarke, D., Griffin, S., Beales, L., Gelais, C. S., Burgess, S., Harris, M., et al. (2006) Evidence for the formation of a heptameric ion channel complex by the hepatitis C virus p7 protein in vitro. J. Biol. Chem. 281, 37057–37068.

    Article  CAS  PubMed  Google Scholar 

  6. Pavlovic, D., Neville, D. C. A., Argaud, O., Blumberg, B., Dwek, R. A., Fischer, W. B., et al. (2003) The hepatitis C virus p7 protein forms an ion channel that is inhibited by long-alkyl-chain iminosugar derivatives. Proc. Natl. Acad. Sci. USA 100, 6104–6108.

    Article  CAS  PubMed  Google Scholar 

  7. Premkumar, A., Wilson, L., Ewart, G. D., and Gage, P. W. (2004) Cation-selective ion channels formed by p7 of hepatitis C virus are blocked by hexamethylene amiloride. FEBS Lett. 557, 99–103.

    Article  CAS  PubMed  Google Scholar 

  8. Gonzalez, M. E. and Carrasco, L. (2003) Viroporins. FEBS Lett. 552, 28–34.

    Article  CAS  PubMed  Google Scholar 

  9. Steinmann, E., Penin, F., Kallis, S., Patel, A. H., Bartenschlager, R., and Pietschmann, T. (2007) Hepatitis C Virus p7 Protein Is Crucial for Assembly and Release of Infectious Virions. PLoS Pathog. 3, e103.

    Article  PubMed  Google Scholar 

  10. Brünger, A. T. (1992) Xplor, a System for Crystallography and NMR, Yale University Press, New Haven, CT.

    Google Scholar 

  11. Laskowski, R. A., Rullmann, J. A. C., MacArthur, M. W., Kaptein, R., and Thornton, J. M. (1996) AQUA and PROCHECK-NMR: programs for checking the quality of protein structures solved by NMR. J. Biomol. NMR 8, 477–486.

    Article  CAS  PubMed  Google Scholar 

  12. Humphrey, W., Dalke, A., and Schulten, K. (1996) VMD: visual molecular dynamics. J. Mol. Graph. 14, 27–28.

    Google Scholar 

  13. Wuthrich, K. (ed.) (1986) NMR of Proteins and Nucleic Acids. John Wiley & Sons, New York.

    Google Scholar 

  14. Opella, S. J. and Marassi, F. M. (2004) Structure determination of membrane proteins by NMR spectroscopy. Chem. Rev. 104, 3587–3606

    Article  CAS  PubMed  Google Scholar 

  15. Montal, M. and Mueller, P. (1972) Formation of bimolecular membranes from lipids monolayers and a study of their electrical properties. Proc. Natl. Acad. Sci. USA 69, 3561–3566.

    Article  CAS  PubMed  Google Scholar 

  16. Hamill, O. P., Marty, E., Neher, E., Sakmann, B., and Sigworth, F. J (1981) Improved patch-clamp techniques for high resolution current recording from cells and cell-free membrane patches. Pflugers Arch. 391, 85–100.

    Article  CAS  PubMed  Google Scholar 

  17. Kelly, S. M., Jess, T. J., and Price, N. C. (2005) How to study proteins by circular dichroism. Biochim Biophys Acta. 1751, 119–39.

    CAS  PubMed  Google Scholar 

  18. Chen, Y.-H., Yang, J. T., and Chau, K. H. (1974) Determination of the helix and β form of proteins in aqueous solution by circular dichroism. Biochemistry 13, 3350–3359.

    Article  CAS  PubMed  Google Scholar 

  19. Penin, F., Geourjon, C., Montserret, R., Böckmann, A., Lesage, A., Yang, Y. S., et al. (1997) Three-dimensional structure of the DNA binding domain of the fructose repressor from Escherichia coli by 1H and 15N NMR. J. Mol. Biol. 270, 496–510.

    Article  CAS  PubMed  Google Scholar 

  20. Favier, A., Brutscher, B., Blackledge, M., Galinier, A., Deutscher, J., Penin, F., et al. (2002) Solution structure and dynamics of Crh, the Bacillus subtilis catabolite repression HPr. J. Mol. Biol. 317, 131–144.

    Article  CAS  PubMed  Google Scholar 

  21. Vakser, I. A., Matar, O. G., and Lam, C. F. (1999) A systematic study of low-resolution recognition in protein-protein complexes. Proc. Natl. Acad. Sci. USA 96, 8477–8482.

    Article  CAS  PubMed  Google Scholar 

  22. Phillips, J. C., Braun, R., Wang, W., Gumbart, J., Tajkhorshid, E., Villa, E., et al. (2005) Scalable molecular dynamics with NAMD. J. Comput. Chem. 26, 1781–1802.

    Article  CAS  PubMed  Google Scholar 

  23. MacKerell, A. D., Jr., Bashford, D., Bellott, M., Dunbrack Jr., R. L., Evanseck, J. D., Field, M. J. et al. (1998) All-atom empirical potential for molecular modeling and dynamics Studies of proteins. J. Phys. Chem. B 102, 3586–3616.

    Article  CAS  Google Scholar 

  24. Schindler, H. (1989) Planar lipid-protein membranes: strategies of formation and of detecting dependencies of ion transport functions on membrane conditions. Meth. Enzymol. 171, 225–253

    Article  CAS  PubMed  Google Scholar 

  25. Rigaud, J. L., Mosser, G., Lacapere, J. J, Olofsson, A., Levy, D., and Ranck, J. L. (1997) Bio-Beads: an efficient strategy for two-dimensional crystallization of membrane proteins. J. Struct. Biol. 118, 226–235.

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgments

This work was supported by the French Centre National de la Recherche Scientifique (CNRS) and Universitéde Lyon, by grants QLK2-CT1999-00356 and QLK2-CT2002-01329 from the European Commission, and by the French National Agency for Research on AIDS and Viral Hepatitis (ANRS). CD experiments were performed on the platform “Production et Analyse de Protéines” from the IFR 128 BioSciences Gerland Lyon-Sud.

Author information

Authors and Affiliations

Authors

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2009 Humana Press, a part of Springer Science+Business Media, LLC

About this protocol

Cite this protocol

Saint, N., Montserret, R., Chipot, C., Penin, F. (2009). Structural and Functional Analysis of the HCV p7 Protein. In: Tang, H. (eds) Hepatitis C. Methods in Molecular Biology™, vol 510. Humana Press. https://doi.org/10.1007/978-1-59745-394-3_10

Download citation

  • DOI: https://doi.org/10.1007/978-1-59745-394-3_10

  • Publisher Name: Humana Press

  • Print ISBN: 978-1-58829-970-3

  • Online ISBN: 978-1-59745-394-3

  • eBook Packages: Springer Protocols

Publish with us

Policies and ethics