盐诱导聚（dG）·聚（dC）的B型向A型转变及其甲基化对A型的稳定作用
Salt induced B----A transition of poly(dG).poly(dC) and the stabilization of A form by its methylation.
作者信息
Nishimura Y, Torigoe C, Tsuboi M
出版信息
Nucleic Acids Res. 1986 Mar 25;14(6):2737-48. doi: 10.1093/nar/14.6.2737.
Abstract
Raman spectra of poly(dG).poly(dC) have been observed in aqueous solutions at various ionic strengths, [NaCl] = 0.03 to 4 M, and at different temperatures, 10 to 60 degrees C. At 30 degrees C, and at [NaCl] = 0.03 M, it was found to have a B-form (with O4'endo-anti guanosine and C2'endo-anti cytidine), whereas, at [NaCl] = 4 M, an A form (with C3'endo-anti guanosine and C3'endo-anti cytidine). At 30 degrees C and [NaCl] = 1 M, namely at an intermediate state, a fraction of this molecules was considered to have a "heteronomous A" form (with O4'endo-anti guanosine and C3' endo-anti cytidine). At 60 degrees C and [NaCl] = 1 M, it assumes the B form, and at 10 degrees C and [NaCl] = 1 M, the A form. Cytosine-5-methylation was found to cause a marked stabilization of the A form. Even at [NaCl] = 0.1 M (at 30 degrees C), a substantial portion of poly(dG).poly(dm5C) was found to have a heteronomous form, in which the dG atrand is in the B form and the dC an A form; it never assumes a complete B form.
摘要
已在不同离子强度（[NaCl]=0.03至4M）和不同温度（10至60摄氏度）的水溶液中观察到聚（dG）·聚（dC）的拉曼光谱。在30摄氏度、[NaCl]=0.03M时，发现其具有B型（O4'内型-反式鸟苷和C2'内型-反式胞苷），而在[NaCl]=4M时，为A型（C3'内型-反式鸟苷和C3'内型-反式胞苷）。在30摄氏度、[NaCl]=1M时，即在中间状态下，该分子的一部分被认为具有“异源A”型（O4'内型-反式鸟苷和C3'内型-反式胞苷）。在60摄氏度、[NaCl]=1M时，它呈现B型，在10摄氏度、[NaCl]=1M时，呈现A型。发现胞嘧啶-5-甲基化会导致A型显著稳定。即使在[NaCl]=0.1M（30摄氏度）时，也发现聚（dG）·聚（dm5C）的很大一部分具有异源形式，其中dG链为B型，dC链为A型；它从不呈现完全的B型。
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本文引用的文献
1
High-salt d(CpGpCpG), a left-handed Z' DNA double helix.高盐条件下的d（CpGpCpG），一种左手Z'型DNA双螺旋结构。
Nature. 1980 Aug 7;286(5773):567-73. doi: 10.1038/286567a0.
2
Left-handed DNA helices.左手DNA螺旋
Nature. 1980 Feb 21;283(5749):743-5. doi: 10.1038/283743a0.
3
The high salt form of poly(dG-dC).poly(dG-dC) is left-handed Z-DNA: Raman spectra of crystals and solutions.聚（dG-dC）·聚（dG-dC）的高盐形式是左手Z-DNA：晶体和溶液的拉曼光谱。
Nucleic Acids Res. 1981 Oct 24;9(20):5443-57. doi: 10.1093/nar/9.20.5443.
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
The molecular structure of d(ICpCpGpG), a fragment of right-handed double helical A-DNA.右手双螺旋A-DNA片段d(ICpCpGpG)的分子结构
Nature. 1982 Jan 28;295(5847):294-9. doi: 10.1038/295294a0.
6
Molecular structure of the octamer d(G-G-C-C-G-G-C-C): modified A-DNA.八聚体d(G-G-C-C-G-G-C-C)的分子结构：修饰的A-DNA
Proc Natl Acad Sci U S A. 1982 Jul;79(13):3968-72. doi: 10.1073/pnas.79.13.3968.
7
Sequence-dependent conformation of an A-DNA double helix. The crystal structure of the octamer d(G-G-T-A-T-A-C-C).A-DNA双螺旋的序列依赖性构象。八聚体d(G-G-T-A-T-A-C-C)的晶体结构。
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8
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9
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Nucleic Acids Res. 1984 Jul 25;12(14):5913-25. doi: 10.1093/nar/12.14.5913.
10
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Cell. 1984 Jun;37(2):491-502. doi: 10.1016/0092-8674(84)90379-9.
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