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. 1981 Aug;78(8):4801–4804. doi: 10.1073/pnas.78.8.4801

Z-DNA: vacuum ultraviolet circular dichroism.

J C Sutherland, K P Griffin, P C Keck, P Z Takacs
PMCID: PMC320251  PMID: 6946428

Abstract

In concentrated salt or ethanolic solutions, the self-complementary copolymer poly(dG-dC).poly(dG-dC) forms a left-handed double-helical structure that has been termed "Z-DNA." The first evidence for this structure came from changes observed in the circular dichroism (CD) spectrum between 230 and 300 nm for low- and high-salt solutions (Pohl, F. M. & Jovin, T. M. (1972) J. Mol. Biol. 67, 675-696). In 3 M NaCl, the CD spectrum is approximately inverted compared to the B-form spectrum observed in low-salt solution. We measured the vacuum ultraviolet CD spectrum of poly(dG-dC).poly(dG-dC) down to 180 nm under conditions in which the 230- to 300-nm spectrum is inverted. Below 200 nm, where the B form exhibits the large positive peak at 187 nm that is characteristic of right-handed double-helical DNAs, the Z form exhibits a large negative peak at 194 nm and a positive band below 186 nm. Therefore, the Z-form vacuum ultraviolet CD spectrum resembles an inverted and red-shifted B-form spectrum. The magnitudes of the differences observed between the B and Z forms in the CD spectrum below 200 nm are about 10 times greater than those observed between 230 and 300 nm. The vacuum ultraviolet CD spectrum of poly(dG-dC).poly(dG-dC) in 3 M Cs2SO4 also is inverted compared to the B-form spectrum; however, between 230 and 300 nm, it is nonconservative with a negative maximum at 290 nm and a weak positive CD signal above 300 nm, presumably reflecting differential light scattering and indicating the existence of molecular aggregates. Our results suggest that the vacuum ultraviolet CD spectrum is sensitive to the handedness of double-helical DNA structures. The CD spectrum in this region should complement other spectroscopic methods in relating the structures of poly(dG-dC).poly(dG-dC) existing in solution to those determined in the solid state by x-ray crystallography.

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Selected References

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

  1. Arnott S., Chandrasekaran R., Birdsall D. L., Leslie A. G., Ratliff R. L. Left-handed DNA helices. Nature. 1980 Feb 21;283(5749):743–745. doi: 10.1038/283743a0. [DOI] [PubMed] [Google Scholar]
  2. Drew H., Takano T., Tanaka S., Itakura K., Dickerson R. E. High-salt d(CpGpCpG), a left-handed Z' DNA double helix. Nature. 1980 Aug 7;286(5773):567–573. doi: 10.1038/286567a0. [DOI] [PubMed] [Google Scholar]
  3. Gray D. M., Edmondson S. P., Lang D., Vaughan M. The circular dichroism and X-ray diffraction of DNA condensed from ethanolic solutions. Nucleic Acids Res. 1979;6(6):2089–2107. doi: 10.1093/nar/6.6.2089. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Gupta G., Bansal M., Sasisekharan V. Conformational flexibility of DNA: polymorphism and handedness. Proc Natl Acad Sci U S A. 1980 Nov;77(11):6486–6490. doi: 10.1073/pnas.77.11.6486. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Hug W., Tinoco I., Jr Electronic spectra of nucleic acid bases. I. Interpretation of the in-plane spectra with the aid of all valence electron MO-CI calculations. J Am Chem Soc. 1973 May 2;95(9):2803–2813. doi: 10.1021/ja00790a010. [DOI] [PubMed] [Google Scholar]
  6. Johnson W. C., Jr A circular dichroism spectrometer for the vacuum ultraviolet. Rev Sci Instrum. 1971 Sep;42(9):1283–1286. doi: 10.1063/1.1685367. [DOI] [PubMed] [Google Scholar]
  7. Lewis D. G., Johnson W. C., Jr Circular dichroism of DNA in the vacuum ultraviolet. J Mol Biol. 1974 Jun 15;86(1):91–96. doi: 10.1016/s0022-2836(74)80009-4. [DOI] [PubMed] [Google Scholar]
  8. Li H. J., Isenberg I., Johnson W. C., Jr Absorption and circular dichroism studies on nucleohistone IV. Biochemistry. 1971 Jun 22;10(13):2587–2593. doi: 10.1021/bi00789a027. [DOI] [PubMed] [Google Scholar]
  9. Livneh Z., Elad D., Sperling J. Endonucleolytic activity directed towards 8-(2-hydroxy-2-propyl) purines in double-stranded DNA. Proc Natl Acad Sci U S A. 1979 Nov;76(11):5500–5504. doi: 10.1073/pnas.76.11.5500. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Patel D. J., Canuel L. L., Pohl F. M. "Alternating B-DNA" conformation for the oligo(dG-dC) duplex in high-salt solution. Proc Natl Acad Sci U S A. 1979 Jun;76(6):2508–2511. doi: 10.1073/pnas.76.6.2508. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Pohl F. M., Jovin T. M., Baehr W., Holbrook J. J. Ethidium bromide as a cooperative effector of a DNA structure. Proc Natl Acad Sci U S A. 1972 Dec;69(12):3805–3809. doi: 10.1073/pnas.69.12.3805. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Pohl F. M. Polymorphism of a synthetic DNA in solution. Nature. 1976 Mar 25;260(5549):365–366. doi: 10.1038/260365a0. [DOI] [PubMed] [Google Scholar]
  13. Sage E., Leng M. Conformation of poly(dG-dC) . poly(dG-dC) modified by the carcinogens N-acetoxy-N-acetyl-2-aminofluorene and N-hydroxy-N-2-aminofluorene. Proc Natl Acad Sci U S A. 1980 Aug;77(8):4597–4601. doi: 10.1073/pnas.77.8.4597. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. 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]
  15. Santella R. M., Grunberger D., Weinstein I. B., Rich A. Induction of the Z conformation in poly(dG-dC).poly(dG-dC) by binding of N-2-acetylaminofluorene to guanine residues. Proc Natl Acad Sci U S A. 1981 Mar;78(3):1451–1455. doi: 10.1073/pnas.78.3.1451. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Sprecher C. A., Baase W. A., Johnson W. C., Jr Conformation and circular dichroism of DNA. Biopolymers. 1979 Apr;18(4):1009–1019. doi: 10.1002/bip.1979.360180418. [DOI] [PubMed] [Google Scholar]
  17. Sutherland J. C., Cimino G. D., Lowe J. T. Emission and polarization spectrometer for biophysical spectroscopy. Rev Sci Instrum. 1976 Mar;47(3):358–360. doi: 10.1063/1.1134624. [DOI] [PubMed] [Google Scholar]
  18. Tunis-Schneider M. J., Maestre M. F. Circular dichroism spectra of oriented and unoriented deoxyribonucleic acid films--a preliminary study. J Mol Biol. 1970 Sep 28;52(3):521–541. doi: 10.1016/0022-2836(70)90417-1. [DOI] [PubMed] [Google Scholar]
  19. Wang A. H., Quigley G. J., Kolpak F. J., Crawford J. L., van Boom J. H., van der Marel G., Rich A. Molecular structure of a left-handed double helical DNA fragment at atomic resolution. Nature. 1979 Dec 13;282(5740):680–686. doi: 10.1038/282680a0. [DOI] [PubMed] [Google Scholar]
  20. Wang A. J., Quigley G. J., Kolpak F. J., van der Marel G., van Boom J. H., Rich A. Left-handed double helical DNA: variations in the backbone conformation. Science. 1981 Jan 9;211(4478):171–176. doi: 10.1126/science.7444458. [DOI] [PubMed] [Google Scholar]
  21. Wells B. D., Yang J. T. A computer probe of the circular dichroic bands of nucleic acids in the ultraviolet region. II. Double-stranded ribonucleic acid and deoxyribonucleic acid. Biochemistry. 1974 Mar 26;13(7):1317–1321. doi: 10.1021/bi00704a002. [DOI] [PubMed] [Google Scholar]

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