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. 1989 Apr 11;17(7):2493–2502. doi: 10.1093/nar/17.7.2493

Kinetics of exchangeable protons in Z DNA: a UV resonance Raman study.

A Laigle 1, L Chinsky 1, P Y Turpin 1, B Jollès 1
PMCID: PMC317638  PMID: 2541409

Abstract

We have studied the hydrogen-deuterium exchange kinetics of the exchangeable protons of the poly(dG-dC).poly(dG-dC) in the Z form of the polymer, using resonance Raman spectroscopy with 257 nm and 284 nm excitation wavelengths. In our experimental conditions (4.5 M NaCl, phosphate buffer pH7, 2 degrees C) the two amino protons and the imino proton of guanine are exchanged with the same exchange half-time of 13 min, whereas the two amino protons of cytosine are exchanged with the same exchange half-time of 51 min.

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Bendel P. Measurement of the helix opening rate in Z-DNA by 1H nuclear magnetic resonance relaxation spectroscopy. Biochem Biophys Res Commun. 1985 Apr 16;128(1):352–359. doi: 10.1016/0006-291x(85)91686-9. [DOI] [PubMed] [Google Scholar]
  2. Hartmann B., Pilet J., Ptak M., Ramstein J., Malfoy B., Leng M. The B reversible Z transition of poly(dI-br5dC).poly(dI-br5dC). A quantitative description of the Z form dynamic structure. Nucleic Acids Res. 1982 May 25;10(10):3261–3277. doi: 10.1093/nar/10.10.3261. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Howard F. B., Frazier J., Miles H. T. Interbase vibrational coupling in G:C polynucleotide helices. Proc Natl Acad Sci U S A. 1969 Oct;64(2):451–458. doi: 10.1073/pnas.64.2.451. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Jollès B., Chinsky L., Laigle A. Contribution of the resonance Raman spectroscopy to the identification of Z DNA. J Biomol Struct Dyn. 1984 Jun;1(6):1335–1346. doi: 10.1080/07391102.1984.10507524. [DOI] [PubMed] [Google Scholar]
  5. Kochoyan M., Leroy J. L., Guéron M. Proton exchange and base-pair lifetimes in a deoxy-duplex containing a purine-pyrimidine step and in the duplex of inverse sequence. J Mol Biol. 1987 Aug 5;196(3):599–609. doi: 10.1016/0022-2836(87)90036-2. [DOI] [PubMed] [Google Scholar]
  6. Kubasek W. L., Hudson B., Peticolas W. L. Ultraviolet resonance Raman excitation profiles of nucleic acid bases with excitation from 200 to 300 nanometers. Proc Natl Acad Sci U S A. 1985 Apr;82(8):2369–2373. doi: 10.1073/pnas.82.8.2369. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Laigle A., Chinsky L., Turpin P. Y. Recognition of base pairs by polar peptides in double stranded DNA. Nucleic Acids Res. 1982 Mar 11;10(5):1707–1720. doi: 10.1093/nar/10.5.1707. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Leroy J. L., Bolo N., Figueroa N., Plateau P., Guérón M. Internal motions of transfer RNA: a study of exchanging protons by magnetic resonance. J Biomol Struct Dyn. 1985 Feb;2(5):915–939. doi: 10.1080/07391102.1985.10507609. [DOI] [PubMed] [Google Scholar]
  9. Leroy J. L., Broseta D., Guéron M. Proton exchange and base-pair kinetics of poly(rA).poly(rU) and poly(rI).poly(rC). J Mol Biol. 1985 Jul 5;184(1):165–178. doi: 10.1016/0022-2836(85)90050-6. [DOI] [PubMed] [Google Scholar]
  10. Mirau P. A., Behling R. W., Kearns D. R. Internal motions in B- and Z-form poly(dG-dC).poly(dG-dC): 1H NMR relaxation studies. Biochemistry. 1985 Oct 22;24(22):6200–6211. doi: 10.1021/bi00343a026. [DOI] [PubMed] [Google Scholar]
  11. Mirau P. A., Kearns D. R. Unusual proton exchange properties of Z-form poly[d(G-C)]. Proc Natl Acad Sci U S A. 1985 Mar;82(6):1594–1598. doi: 10.1073/pnas.82.6.1594. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Patel D. J., Shapiro L., Hare D. DNA and RNA: NMR studies of conformations and dynamics in solution. Q Rev Biophys. 1987 Aug;20(1-2):35–112. doi: 10.1017/s0033583500004224. [DOI] [PubMed] [Google Scholar]
  13. Pilet J., Leng M. Comparison of poly(dG-dC).poly(dG-dC) conformations in oriented films and in solution. Proc Natl Acad Sci U S A. 1982 Jan;79(1):26–30. doi: 10.1073/pnas.79.1.26. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Ramstein J., Leng M. Salt-dependent dynamic structure of poly(dG-dC) x poly(dG-dC). Nature. 1980 Nov 27;288(5789):413–414. doi: 10.1038/288413a0. [DOI] [PubMed] [Google Scholar]
  15. Ramstein J., Vogt N., Leng M. "Asymmetric" opening reaction mechanism of Z-DNA base pairs: a hydrogen exchange study. Biochemistry. 1985 Jul 2;24(14):3603–3609. doi: 10.1021/bi00335a031. [DOI] [PubMed] [Google Scholar]
  16. Sage E., Leng M. Conformational changes of poly(dG-dC) . poly(dG-dC) modified by the carcinogen N-acetoxy-N-acetyl-2-aminofluorene. Nucleic Acids Res. 1981 Mar 11;9(5):1241–1250. doi: 10.1093/nar/9.5.1241. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Teitelbaum H., Englander S. W. Open states in native polynucleotides. I. Hydrogen-exchange study of adenine-containing double helices. J Mol Biol. 1975 Feb 15;92(1):55–78. doi: 10.1016/0022-2836(75)90091-1. [DOI] [PubMed] [Google Scholar]
  18. Teitelbaum H., Englander S. W. Open states in native polynucleotides. II. Hydrogen-exchange study of cytosine-containing double helices. J Mol Biol. 1975 Feb 15;92(1):79–92. doi: 10.1016/0022-2836(75)90092-3. [DOI] [PubMed] [Google Scholar]

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