Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

Structure at 2.8 Å resolution of cytochrome c oxidase from Paracoccus denitrificans

Nature volume 376, pages 660–669 (1995)Cite this article

Abstract

The crystal structure at 2.8 Å resolution of the four protein subunits containing cytochrome c oxidase from the soil bacterium Paracoccus denitrificans, complexed with an antibody Fv fragment, is described. Subunit I contains 12 membrane-spanning, primarily helical segments and binds haem a and the haem a3-copper B binuclear centre where molecular oxygen is reduced to water. Two proton transfer pathways, one for protons consumed in water formation and one for 'proton pumping', could be identified. Mechanisms for proton pumping are discussed.

This is a preview of subscription content

Access options

Buy article

Get time limited or full article access on ReadCube.

$32.00

Buy

All prices are NET prices.

References

  1. Babcock, G. T. & Wikstöm, M. Nature 356, 301–309 (1992).

    ADS  CAS  Article  Google Scholar 

  2. Saraste, M. Q. Rev. Biophys. 23, 331–366 (1990).

    CAS  Article  Google Scholar 

  3. Calhoun, M. W., Thomas, J. W. & Gennis, R. B. Trends biochem. Sci. 19, 325–330 (1994).

    CAS  Article  Google Scholar 

  4. Kadenbach, B., Kuhn-Nentwig, L. & Büge, K. Curr. Topics Bioenerg. 15, 113–161 (1987).

    CAS  Article  Google Scholar 

  5. Haltia, T. Biochemistry 33, 9731–9740 (1990).

    Article  Google Scholar 

  6. Caughey, W. S. et al. J. Bioenerg. Biomembr. 25, 81–92 (1993).

    CAS  Article  Google Scholar 

  7. Ludwig, B. & Schatz, G. Proc. natn. Acad. Sci. U.S.A. 77, 196–200 (1980).

    ADS  CAS  Article  Google Scholar 

  8. Hendler, R. W., Pardhasaradhi, K., Reynafarje, B. & Ludwig, B. Biophys. J. 60, 415–423 (1991).

    CAS  Article  Google Scholar 

  9. Haltia, T. et al. EMBO J. 8, 3571–3579 (1989).

    CAS  Article  Google Scholar 

  10. Pascher, I., Lundmark, M., Nyholm, P.-G. & Sundell, S. Biochim. biophys. Acta 1113, 339–373 (1992).

    CAS  Article  Google Scholar 

  11. Haltia, T., Saraste, M. & Wikström, M. EMBO J. 8, 2015–2021 (1991).

    Article  Google Scholar 

  12. Turba, A., Jetzek, M. & Ludwig, B. Eur. J. Biochem. 231, 259–265 (1995).

    CAS  PubMed  Google Scholar 

  13. Adman, E. T., Adv. Protein Chem. 42, 145–197 (1991).

    CAS  Article  Google Scholar 

  14. Steffens, G. J. & Buse, G. Hoppe-Seyler's Z. physiol. Chem. 360, 613–619 (1979).

    CAS  PubMed  Google Scholar 

  15. Guss, M., Bartunik, H. D. & Freeman, H. C. J. Acta Crystallogr. B 48, 790–811 (1992).

    Article  Google Scholar 

  16. Steffens, G. C. M., Soulimane, T., Wolff, G. & Buse, G. Eur. J. Biochem. 213, 1149–1157 (1993).

    CAS  Article  Google Scholar 

  17. Kelly, M. et al. J. biol. Chem. 268, 16781–16787 (1993).

    CAS  PubMed  Google Scholar 

  18. Antholine, W. E. et al. Eur. J. Biochem. 209, 875–881 (1992).

    CAS  Article  Google Scholar 

  19. Blackburn, N. J. et al. Biochemistry 33, 10401–10407 (1994).

    CAS  Article  Google Scholar 

  20. van der Oost, J. et al. EMBO J. 11, 3209–3217 (1992).

    CAS  Article  Google Scholar 

  21. Rieder, R. & Bosshard, H. R. J. biol. Chem. 255, 4732–4739 (1980).

    CAS  PubMed  Google Scholar 

  22. Hosler, J. P. et al. J. Bioenerg. Biomembr. 25, 136–143 (1993).

    Article  Google Scholar 

  23. Thomas, J. W. et al. Biochemistry 32, 10923–10928 (1993).

    CAS  Article  Google Scholar 

  24. Garcia-Horsman, J. A., Puustinen, A., Gennis, R. B. & Wikström, M. Biochemistry 34, 4428–4433 (1995).

    CAS  Article  Google Scholar 

  25. Hosler, J. P., Espe, M. P., Zhen, Y., Babcock, G. T. & Ferguson-Miller, S. Biochemistry 34, 7586–7592 (1995).

    CAS  Article  Google Scholar 

  26. Wikström, M. et al. Biochim. biophys. Acta 1187, 106–111 (1996).

    Article  Google Scholar 

  27. Morgan, J. E., Verkhovsky, M. I. & Wikström, M. J. Bioenerg. Biomembr. 26, 599–608 (1994).

    CAS  Article  Google Scholar 

  28. Mitchell, R. & Rich, P. R. Biochim. biophys. Acta 1186, 19–26 (1994).

    CAS  Article  Google Scholar 

  29. Rich, P. R. Aust. J. Pl. Physiol. 22, 479–486 (1994).

    Google Scholar 

  30. Wikström, M. Nature 338, 776–778 (1989).

    ADS  Article  Google Scholar 

  31. Moody, A. J., Cooper, C. E. & Rich, P. R. Biochim. biophys. Acta 1059, 189–207 |1991).

    CAS  Article  Google Scholar 

  32. Sakabe, N. J. appl. Crystallogr. 16, 542–547 (1983).

    CAS  Article  Google Scholar 

  33. Otwinowski, Z. in Proc. CCP4 Study Weekend, 29–30 Jan 1993, Data collection and Processing (eds Sawer, L., Isaacs. N. & Bailey, S.) 56–62 (SERC Daresbury Laboratory, Warrington. 1993).

    Google Scholar 

  34. Collaborative Computational Project. Number 4. Acta crystaltogr. D 50, 760–763 (1994).

  35. Otwinowski, Z. in Proc. CCP4 Study Weekend, 25–26 Jan 1991, Isomorphous Replacement and Anomalous Scattering (eds Wolf, W., Evans, P. R. & Leslie, A. G. W.) 80–86 (SERC Daresbury Laboratory, Warrington, 1991).

    Google Scholar 

  36. Brünger, A. T. Nature 355, 472–475 (1992).

    ADS  Article  Google Scholar 

  37. Cowtan, K. in Joint CCP4 and ESF-EACBM Newsletter on Protein Crystallography 31, 34–38 (1994).

  38. Abrahams, J. P., Leslie, A. G. W., Lutter, R. & Walker, J. E. Nature 370, 621–628 (1994).

    ADS  CAS  Article  Google Scholar 

  39. Jones, T. A., Zou, J. Y., Cowan, S. W. & Kjeldgaard, M. Acta. crystaltogr. A 47, 110–119 (1991).

    Article  Google Scholar 

  40. Raitio, M., Pispa, J. M., Metso, T. & Saraste, M. FEBS Lett. 261, 431–435 (1990).

    CAS  Article  Google Scholar 

  41. Essen, L. O. thesis. Johann Wolfgang Goethe-Univ. (1995).

  42. Brünger, A. T., Kuriyan, J. & Karplus, M. Science 235, 458–460 (1987).

    ADS  Article  Google Scholar 

  43. Kabsch, W. & Sander, C. Biopolymers 22, 2577–2637 (1983).

    CAS  Article  Google Scholar 

  44. Kraulis, P. J. J. appl. Crystallogr. 24, 946–950 (1991).

    Article  Google Scholar 

  45. Bacon, D. J. & Anderson, W. F. J. molec. Graphics 6, 219–220 (1988).

    Article  Google Scholar 

  46. Merrit, E. A. & Murphy, M. E. P. Acta Crystallogr. D 50, 896–873 (1994).

    Google Scholar 

Download references

Author information

Affiliations

  1. Max-Planck-lnstitut für Biophysik, Heinrich-Hoffmann-Strasse 7, D-60528, Frankfurt/M., Germany

    So Iwata, Christian Ostermeier & Hartmut Michel

  2. Johann-Wolfgang-Goethe Universität, Biozentrum, Institut für Biochemie, Molekulare Genetik, Marie-Curie-Strasse 9, D-60439, Frankfurt/M., Germany

    Bernd Ludwig

Authors
  1. So Iwata
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Christian Ostermeier
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Bernd Ludwig
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Hartmut Michel
    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

Iwata, S., Ostermeier, C., Ludwig, B. et al. Structure at 2.8 Å resolution of cytochrome c oxidase from Paracoccus denitrificans. Nature 376, 660–669 (1995). https://doi.org/10.1038/376660a0

Download citation

  • Received:

  • Accepted:

  • Issue Date:

  • DOI: https://doi.org/10.1038/376660a0

Further reading

Comments

By submitting a comment you agree to abide by our Terms and Community Guidelines. If you find something abusive or that does not comply with our terms or guidelines please flag it as inappropriate.

Search

Advanced search

Quick links

Nature Briefing

Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.

Get the most important science stories of the day, free in your inbox. Sign up for Nature Briefing