Molecular‐mechanical studies of Z‐DNA: A comparison of the structural and energetic properties of Z‐ and B‐DNA

Peter Kollman, Paul Weiner, Gary Quigley, Andrew Wang

研究成果: 雜誌貢獻文章同行評審

52 引文 斯高帕斯(Scopus)

摘要

Molecular‐mechanical studies of the left‐handed Z‐DNA polymers have been carried out and the results compared with similar calculations on B‐DNA polymers. We have studied d(CGCGCG)2, d(GCGCGC)2 (and their 5‐methyl cytosine analogs), dG6·dC6, d(ATATAT)2, and d(TATATA)2 in both B‐ and Z‐forms. For the left‐handed Z helices, we considered the ZI and ZII model of Quigley and co‐workers [Wang, A. H., Quigley, G. J., Kolpak, F. J., Crawford, J. L., van Boom, J. H., van der Marel, G. & Rich, A. (1979) Nature (London) 282, 680–686], the actual “Z spermidine” and “Z spermine” structures of Quigley and the model‐built structure of Chandresekharan et al. [Arnott, S., Chandresekharan, R., Bindsall, D. L., Leslie, A. G. W. & Ratliff, R. L. (1980) Nature 283, 743–745]. The major conclusions of this study are as follows. (1) The stabilization of Z‐DNA relative to B‐DNA occurs as one increases the “effective” dielectric constant or adds counterions, consistent with observations of Z‐DNA only under high salt conditions. (2) The ZII polymer is calculated to be more stable than the ZI polymer. It is not yet clear whether the greater stability of ZII than ZI is a real effect or an artifact caused by the lack of inclusion of specific solvation effects in these calculations. (3) The greater tendency of the 5‐methyl cytosine analog of poly(dG‐dC)·poly(dG‐dC) to undergo the B → Z transition is found in our calculations and is due to destabilizing base–base and base–phosphate interactions, which are greater in the B‐ than in the Z‐form of the 5‐methyl cytosine polymer. (4) There are no large sequence‐dependent effects on the relative stabilities, and the AT polymers are calculated to be as likely to form Z‐helices as the GC polymers. In addition, the relative stability of a nonalternating sequence in the conformation is only slightly less than that found for alternating sequences.

原文英語
頁(從 - 到)1945-1969
頁數25
期刊Biopolymers
21
發行號10
DOIs
出版狀態已發佈 - 10月 1982
對外發佈

ASJC Scopus subject areas

  • 生物物理學
  • 生物化學
  • 生物材料
  • 有機化學

指紋

深入研究「Molecular‐mechanical studies of Z‐DNA: A comparison of the structural and energetic properties of Z‐ and B‐DNA」主題。共同形成了獨特的指紋。

引用此