基于二聚体亚基的最低能量构象构建的聚脱氧腺苷酸单链无规卷曲形式模型。

A model for the single stranded random coil form of polydeoxyadenylic acid from minimum energy conformations of the dimeric subunit.

作者信息

Hingerty B, Broyde S

出版信息

Nucleic Acids Res. 1978 Sep;5(9):3249-60. doi: 10.1093/nar/5.9.3249.

DOI:10.1093/nar/5.9.3249

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC342246/

Abstract

The minimum energy conformations of dApdA have been examined for their suitability as buildings blocks of the single stranded coil form of polynucleotides. Calculations of the characteristic ratio C difference = less than ro greater than 2/n liter2 were made for a polymer generated from all the low energy conformers, as well as for selected combinations. A polymer composed of a conformer with omega', omega = t*,g+,(skewed) psi = t, C-(2)-endo type pucker, in combination with the 'B' form, has a C difference equal to that observed in coils of apurinic acid (6) when the fraction of 'B' form conformers is approximately 25% and approximately 91%. The t*,g+ conformer is the second lowest energy form in the C-(2)-endo puckering domain, following the 'B' form.

摘要

已对dApdA的最低能量构象作为多核苷酸单链卷曲形式的构建块的适用性进行了研究。对由所有低能量构象异构体生成的聚合物以及选定的组合进行了特征比C差值（<r₀>²/n<2>）的计算。当“B”型构象异构体的比例约为25%和约91%时，由具有ω'、ω=t*、g⁺（扭曲）、ψ=t、C-(2)-内型褶皱的构象异构体与“B”型组合而成的聚合物，其C差值与无嘌呤酸卷曲中观察到的C差值相等（6）。t*、g⁺构象异构体是C-(2)-内型褶皱域中能量第二低的形式，仅次于“B”型。

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引用本文的文献

1

The influence of terminal 3', 5' phosphates on conformations of dApdA.3'、5' 末端磷酸对 dApdA 构象的影响。

Nucleic Acids Res. 1979;6(6):2165-78. doi: 10.1093/nar/6.6.2165.

本文引用的文献

1

Studies of the temperature-dependent conformation and phase separation of polyriboadenylic acid solutions at neutral pH.中性pH条件下聚核糖核酸溶液的温度依赖性构象和相分离研究。

J Mol Biol. 1967 Nov 28;30(1):17-37. doi: 10.1016/0022-2836(67)90240-9.

2

Conformation of polyribouridylic acid in solution.溶液中多聚核糖核苷酸的构象

J Mol Biol. 1970 Jun 14;50(2):373-89. doi: 10.1016/0022-2836(70)90199-3.

3

The conformation of single-strand polynucleotides in solution: sedimentation studies of apurinic acid.溶液中单链多核苷酸的构象：脱嘌呤核酸的沉降研究

Biopolymers. 1971;10(9):1625-34. doi: 10.1002/bip.360100916.

4

Syntheses and properties of adenine and thymine nucleoside alkyl phosphotriesters, the neutral analogs of dinucleoside monophosphates.腺嘌呤和胸腺嘧啶核苷烷基磷酸三酯（二核苷单磷酸的中性类似物）的合成与性质

J Am Chem Soc. 1971 Dec;93(24):6657-65. doi: 10.1021/ja00753a054.

5

Proton magnetic resonance study on adenine dideoxynucleoside monophosphate with emphasis on the furanose conformation.腺嘌呤双脱氧单磷酸核苷的质子磁共振研究，重点关注呋喃糖构象。

J Am Chem Soc. 1971 Dec;93(24):6647-56. doi: 10.1021/ja00753a053.

6

Conformational analysis of the sugar ring in nucleosides and nucleotides. A new description using the concept of pseudorotation.核苷和核苷酸中糖环的构象分析。一种使用假旋转概念的新描述。

J Am Chem Soc. 1972 Nov 15;94(23):8205-12. doi: 10.1021/ja00778a043.

7

Spatial configurations of polynucleotide chains. 3. Polydeoxyribonucleotides.

Biopolymers. 1972 Jan;11(1):57-66. doi: 10.1002/bip.1972.360110104.

8

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Biopolymers. 1972 Jan;11(1):1-23. doi: 10.1002/bip.1972.360110102.

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Spatial configuration of polynucleotide chains. II. Conformational energies and the average dimensions of polyribonucleotides.

Biopolymers. 1972 Jan;11(1):25-56. doi: 10.1002/bip.1972.360110103.

10

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