Skip to main content

Advertisement

SpringerLink
Log in

Analysis and prediction of protein β-sheet structures by a combinatorial approach

  • Article
  • Published:

From Nature

View current issue Submit your manuscript

Abstract

Analysis of β-sheet sandwiches (for example immunoglobulin domains) suggests an algorithm that successfully predicts the tertiary fold of these proteins from their sequence and secondary structure. We propose tertiary structures for β2- microglobulin and an HLA-B7 antigen fragment. Topological rules are presented that markedly reduce the number of folds for proteins in which a-helices pack against a parallel β-sheet.

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

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Similar content being viewed by others

References

  1. Levitt, M. & Chothia, C. Nature 261, 552–558 (1976).

    Article  CAS  ADS  Google Scholar 

  2. Chothia, C. & Janin, J. J. molec. Biol. 105, 1–14 (1976).

    Article  CAS  Google Scholar 

  3. Richardson, J. S. Proc. natn. Acad. Sci. U.S.A. 73, 2619–2623 (1976).

    Article  CAS  ADS  Google Scholar 

  4. Sternberg, M. J. E. & Thornton, J. M. J. molec. Biol. 105, 367–382 (1976); 110, 269–283 (1977).

    Article  CAS  Google Scholar 

  5. Chothia, C., Levitt, M. & Richardson, D. Proc. natn. Acad. Sci. U.S.A. 74, 4130–4134 (1977).

    Article  CAS  ADS  Google Scholar 

  6. Richardson, J. S. Nature 268, 495–500 (1977).

    Article  CAS  ADS  Google Scholar 

  7. Richmond, T. J. & Richards, F. M. J. molec. Biol. 119, 537–555 (1978).

    Article  CAS  Google Scholar 

  8. Némethy, G. & Scheraga, H. A. Q. Rev. Biophys. 10, 239–352 (1977).

    Article  Google Scholar 

  9. Sternberg, M. J. E. & Thornton, J. M. Nature 271, 15–20 (1978).

    Article  CAS  ADS  Google Scholar 

  10. Schulz, G. E. & Schirmer, R. H. Principles of Protein Structure (Springer, New York, 1979).

    Book  Google Scholar 

  11. Levitt, M. J. molec. Biol. 104, 59–107 (1976).

    Article  CAS  Google Scholar 

  12. Kuntz, I. D., Crippen, G. M., Kollman, P. A. & Kimelman, D. J. molec. Biol. 106, 983–994 (1976).

    Article  CAS  Google Scholar 

  13. Robson, B. & Osguthorpe, D. J. J. molec. Biol. 132, 19–51 (1979).

    Article  CAS  Google Scholar 

  14. Hagler, A. T. & Honig, B. Proc. natn. Acad. Sci. U.S.A. 75, 554–558 (1978).

    Article  CAS  ADS  Google Scholar 

  15. Cohen, F. E. & Sternberg, M. J. E. J. molec. Biol. 138, 321–333 (1980).

    Article  CAS  Google Scholar 

  16. Cohen, F. E., Richmond, T. J. & Richards, F. M. J. molec. Biol. 132, 275–288 (1979).

    Article  CAS  Google Scholar 

  17. Cohen, F. E. & Sternberg, M. J. E. J. molec. Biol. 137, 9–22 (1980).

    Article  CAS  Google Scholar 

  18. Nyberg, S. C. Acta crystallogr. B30, 251–253 (1974).

    Article  Google Scholar 

  19. Chothia, C. Nature 248, 338–339 (1974).

    Article  CAS  ADS  Google Scholar 

  20. Bernstein, F. C. et al. J. molec. Biol. 112, 535–542 (1977).

    Article  CAS  Google Scholar 

  21. Saul, F. A., Amzel, L. M. & Poljak, R. J. J. biol. Chem. 253, 585–597 (1978).

    CAS  PubMed  Google Scholar 

  22. Huber, R., Deisenhofer, J., Colman, P. M., Matsushima, M. & Palm, W. Nature 264, 415–420 (1976).

    Article  CAS  ADS  Google Scholar 

  23. Blake, C. C. F., Geisow, M. J., Oatley, S. J., Rerat, B. & Rerat, C. J. molec. Biol. 121, 339–356 (1978).

    Article  CAS  Google Scholar 

  24. Beale, D. & Feinstein, A. Q. Rev. Biophys. 9, 135–180 (1976).

    Article  CAS  Google Scholar 

  25. Chothia, C. J. molec. Biol. 75, 295–302 (1973).

    Article  CAS  Google Scholar 

  26. Momany, F. A., McGuire, R. F., Burgess, A. W. & Scheraga, H. A. J. phys. Chem. 79, 2361–2381 (1975).

    Article  CAS  Google Scholar 

  27. Ptitsyn, O. B., Finkelstein, A. V. & Falk Bendzko, P. FEBS Lett. 101, 1–5 (1979).

    CAS  Google Scholar 

  28. Richardson, J. S., Getzoff, E. D. & Richardson, D. C. Proc. natn. Acad. Sci. U.S.A. 75, 2574–2578 (1978).

    Article  CAS  ADS  Google Scholar 

  29. Dayhoff, M. O. Atlas of Protein Sequence and Structure Vol.5 Suppl. 2, 168–169 (National Biomedical Research Foundation, Washington D. C., 1976).

    Google Scholar 

  30. Orr, H. T., Lancet, D., Robb, R. J., Lopez de Castro, J. A. & Strominger, J. L. Nature 282, 266–270 (1979).

    Article  CAS  ADS  Google Scholar 

  31. Garnier, J., Osguthorpe, D. J. & Robson, B. J. molec. Biol. 120, 97–120 (1978).

    Article  CAS  Google Scholar 

  32. Schulz, G. E. & Schirmer, R. H. Nature 250, 142–144 (1974).

    Article  CAS  ADS  Google Scholar 

  33. Richardson, J. S., Richardson, D. C., Thomas, K. A., Silverton, E. W. & Davies, D. R. J. molec. Biol. 102, 221–235 (1976).

    Article  CAS  Google Scholar 

  34. Rossmann, M. G., Liljas, A., Branden, C.-I. & Banaszak, L. J. Enzymes 11, 61–102 (1974).

    Article  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Laboratory of Molecular Biophysics, Department of Zoology, South Parks Road, Oxford, OX1 3PS, UK

    Fred E. Cohen, Michael J. E. Sternberg & William R. Taylor

Authors
  1. Fred E. Cohen
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Michael J. E. Sternberg
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. William R. Taylor
    View author publications

    You can also search for this author in PubMed Google Scholar

Rights and permissions

Reprints and permissions

About this article

Cite this article

Cohen, F., Sternberg, M. & Taylor, W. Analysis and prediction of protein β-sheet structures by a combinatorial approach. Nature 285, 378–382 (1980). https://doi.org/10.1038/285378a0

Download citation

  • Received:

  • Accepted:

  • Issue Date:

  • DOI: https://doi.org/10.1038/285378a0

  • Springer Nature Limited

This article is cited by

Search

Navigation