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.

  • Article
  • Published:

Highly structured water network in crystals of a deoxydinucleoside–drug complex

Abstract

X-ray diffraction analysis of crystals of the intercalative complex between the deoxyribonucleoside phosphate d(CpG) and the mutagen proflavine shows a highly structured arrangement of water molecules linked together by networks of hydrogen bonds to form four edge-linked pentagons per asymmetric unit. These pentagons have a general role in maximizing hydrogen bonding at 3.4-Å intervals. The conformation of the deoxyribose sugar ring at the 3′ end of one strand can depend on its local aqueous environment.

This is a preview of subscription content, access via your institution

Access options

Buy this article

Prices may be subject to local taxes which are calculated during checkout

Similar content being viewed by others

References

  1. Texter, J. Prog. Biophys. molec. Biol. 33, 83–97 (1978).

    Article  CAS  Google Scholar 

  2. Lewin, S. J. theor. Biol. 17, 181–212 (1967).

    Article  CAS  Google Scholar 

  3. Clementi, E. & Corongiu, G. Biopolymers 18, 2431–2450 (1979).

    Article  CAS  Google Scholar 

  4. Bloomfield, V. A., Crothers, D. M. & Tinoco, I. in Physical Chemistry of Nucleic Acids (Harper & Row, New York, 1974).

    Google Scholar 

  5. Tunis, M. J. B. & Hearst, J. E. Biopolymers 6, 1345–1353 (1968).

    Article  CAS  Google Scholar 

  6. Wolf, B. & Hanlon, S. Biochemistry 14, 1661–1670 (1975).

    Article  CAS  Google Scholar 

  7. Falk, M., Hartman, K. A. Jr & Lord, R. C. J. Am. chem. Soc. 85, 387–391 (1963).

    Article  CAS  Google Scholar 

  8. Alden, C. J. & Kim, S. H. J. molec. Biol. 132, 411–434 (1979).

    Article  CAS  Google Scholar 

  9. Rosenberg, J. M., Seeman, N. C., Day, D. O. & Rich, A. J. molec. Biol. 104, 145–167 (1976).

    Article  CAS  Google Scholar 

  10. Seeman, N. C., Rosenberg, J. M., Suddath, F. L., Kim, J. J. P. & Rich, A. J. molec. Biol. 104, 109–144 (1976).

    Article  CAS  Google Scholar 

  11. Seeman, N. C., Rosenberg, J. M. & Rich, A. Proc. natn. Acad. Sci. U.S.A. 73, 804–808 (1976).

    Article  ADS  CAS  Google Scholar 

  12. Goldblum, A., Perahia, D. & Pullman, A. FEBS Lett. 91, 213–215 (1978).

    Article  CAS  Google Scholar 

  13. Thiyagarajan, P. & Ponnuswamy, P. K. Biopolymers 18, 2233–2247 (1979).

    Article  CAS  Google Scholar 

  14. Viswamitra, M. A. et al. Nature 273, 687–688 (1978).

    Article  ADS  CAS  Google Scholar 

  15. Wang, A. H.-J. et al. Nature 282, 680–686 (1979).

    Article  ADS  CAS  Google Scholar 

  16. Shieh, H.-S., Berman, H. M., Dabrow, M. & Neidle, S. Nucleic Acids Res. 8, 85–97 (1980).

    Article  CAS  Google Scholar 

  17. Pullman, A. in Structure and Conformation o f Nucleic Acids and Protein-Nucleic Interactions (eds Sundaralingam, M. & Rao, S. T.) 457–484 (University Park Press, Baltimore, 1975).

    Google Scholar 

  18. Schwartenbach, D. J. chem. Phys. 48, 4134–4140 (1968).

    Article  ADS  Google Scholar 

  19. Jeffrey, G. A. Acct. Chem. Res. 2, 344–352 (1969).

    Article  CAS  Google Scholar 

  20. Berman, H. M. et al. Biopolymers 18, 2405–2429 (1979).

    Article  CAS  Google Scholar 

  21. Sobell, H. M. in Nucleic Acid Geometry and Dynamics (ed. Sarma, R. H.) 83–108 (Pergamon, New York, 1980).

    Google Scholar 

  22. Berman, H. M., Neidle, S. & Stodola, R. K. Proc. natn. Acad. Sci. U.S.A. 75, 828–832 (1978).

    Article  ADS  CAS  Google Scholar 

  23. Saenger, W. Nature 279, 343–344 (1979).

    Article  ADS  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Rights and permissions

Reprints and permissions

About this article

Cite this article

Neidle, S., Berman, H. & Shieh, H. Highly structured water network in crystals of a deoxydinucleoside–drug complex. Nature 288, 129–133 (1980). https://doi.org/10.1038/288129a0

Download citation

  • Received:

  • Accepted:

  • Issue Date:

  • DOI: https://doi.org/10.1038/288129a0

This article is cited by

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

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