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核酸片段构象参数分析。III. 极短链寡核苷酸。碱基堆积的影响。

Analysis of conformational parameters in nucleic acid fragments. III. Very short chain oligonucleotides. The effect of base stacking.

作者信息

Wilson C C

机构信息

Neutron Division, Rutherford Appleton Laboratory, Didcot, Oxon, UK.

出版信息

Nucleic Acids Res. 1988 Jun 10;16(11):4751-9. doi: 10.1093/nar/16.11.4751.

DOI:10.1093/nar/16.11.4751
PMID:3387207
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC336693/
Abstract

Studies have been made of conformational parameters in single crystal structures of very short chain oligonucleotides consisting of strands with lengths in the range 2-3 bases. Using published data extracted from the Cambridge structural database for 20 such structures, a total of 14 base-pairs were found, of which 10 were hetero-pairs and 4 homo-pairs. Subjecting these to analysis to examine hydrogen bond parameters, propeller twist, buckle and C1'-C1' separation revealed an average propeller twist of 11.6 degrees, with no dependence of this parameter on hydrogen bonding details. In addition, an analysis of base stacking showed there to be no correlation between in-plane geometry and degree of inter-plane overlap.

摘要

人们对由长度在2至3个碱基范围内的链组成的极短链寡核苷酸单晶结构中的构象参数进行了研究。利用从剑桥结构数据库中提取的20个此类结构的已发表数据，共发现了14个碱基对，其中10个是异源对，4个是同源对。对这些碱基对进行分析以检查氢键参数、螺旋桨扭转、弯曲和C1'-C1'间距，结果显示平均螺旋桨扭转角度为11.6度，该参数与氢键细节无关。此外，对碱基堆积的分析表明，平面内几何形状与平面间重叠程度之间没有相关性。

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本文引用的文献

1
Base sequence and helix structure variation in B and A DNA.B型和A型DNA的碱基序列及螺旋结构变异
J Mol Biol. 1983 May 25;166(3):419-41. doi: 10.1016/s0022-2836(83)80093-x.
2
Stereochemistry of nucleic acids and their constituents. X. Solid-state base-stacking patterns in nucleic acid constituents and polynucleotides.核酸及其成分的立体化学。X.核酸成分和多核苷酸中的固态碱基堆积模式。
Biopolymers. 1971;10(1):175-219. doi: 10.1002/bip.360100113.
3
Analysis of conformational parameters in nucleic acid fragments. I. Single crystals of nucleosides and nucleotides.核酸片段构象参数分析。I. 核苷和核苷酸的单晶
Nucleic Acids Res. 1987 Nov 11;15(21):8577-91. doi: 10.1093/nar/15.21.8577.
4
Analysis of conformational parameters in nucleic acid fragments. II. Co-crystal complexes of nucleic acid bases.核酸片段中构象参数的分析。II. 核酸碱基的共晶复合物
Nucleic Acids Res. 1988 Jan 25;16(2):385-93. doi: 10.1093/nar/16.2.385.

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