真空紫外圆二色性作为核酸中螺旋手性的指标。
Vacuum ultraviolet circular dichroism as an indicator of helical handedness in nucleic acids.
作者信息
Williams A L, Cheong C, Tinoco I, Clark L B
出版信息
Nucleic Acids Res. 1986 Aug 26;14(16):6649-59. doi: 10.1093/nar/14.16.6649.
Abstract
Calculated circular dichroism spectra are presented for double-stranded polynucleotides of regular sequences in A-RNA, A-DNA, B-DNA, and Z-DNA conformations. Quantum mechanical matrix method calculations were carried out in the near and vacuum ultraviolet regions. In the near UV, the calculated spectra agreed qualitatively with the measured spectra. However in the far and vacuum UV, the calculated CD compared nearly quantitatively with the experimental spectra. The calculations show that the sign of the CD in the vacuum UV, in contrast to that in the near UV, can be correlated with the handedness of the helix.
摘要
本文给出了具有A-RNA、A-DNA、B-DNA和Z-DNA构象的规则序列双链多核苷酸的计算圆二色光谱。采用量子力学矩阵方法在近紫外和真空紫外区域进行了计算。在近紫外区域，计算光谱与测量光谱在定性上相符。然而，在远紫外和真空紫外区域，计算得到的圆二色光谱与实验光谱几乎在定量上相符。计算结果表明，与近紫外区域不同，真空紫外区域圆二色光谱的符号与螺旋的手性相关。
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本文引用的文献
1
Left-handed double helical DNA: variations in the backbone conformation.左手双螺旋DNA：主链构象的变化
Science. 1981 Jan 9;211(4478):171-6. doi: 10.1126/science.7444458.
2
Salt-induced conformational changes of poly(dA-dT).盐诱导的聚（dA-dT）构象变化。
Nucleic Acids Res. 1980 Sep 11;8(17):3965-73. doi: 10.1093/nar/8.17.3965.
3
Polymorphism of DNA double helices.DNA双螺旋的多态性
J Mol Biol. 1980 Oct 15;143(1):49-72. doi: 10.1016/0022-2836(80)90124-2.
4
Natural DNA sequences can form left-handed helices in low salt solution under conditions of topological constraint.在拓扑学限制条件下，天然DNA序列在低盐溶液中可形成左手螺旋结构。
J Mol Biol. 1982 Dec 5;162(2):473-93. doi: 10.1016/0022-2836(82)90539-3.
5
Conformational transitions of poly(dA-dC).poly(dG-dT) induced by high salt or in ethanolic solution.高盐或乙醇溶液诱导的聚（dA-dC）·聚（dG-dT）的构象转变
Nucleic Acids Res. 1982 Feb 11;10(3):1081-91. doi: 10.1093/nar/10.3.1081.
6
A Z-like form of poly(dA-dC).poly(dG-dT) in solution?溶液中聚（dA-dC）·聚（dG-dT）的Z型结构？
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7
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9
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Biochemistry. 1984 Nov 6;23(23):5439-46. doi: 10.1021/bi00318a010.
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