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2-Deoxy-beta-D-erythro-pentofuranose:从量子化学计算中得出的基甲基组构成和替代剂对分子结构,环形状学和NMR自旋-自旋合常数的影响
F Cloran1, I Carmichael, A S Serianni
1Department of Chemistry and Biochemistry, and the Radiation Laboratory, University of Notre Dame, Notre Dame, Indiana 46556, USA.
Journal of the American Chemical Society
|July 18, 2001
概括
计算研究揭示了基甲基旋转如何影响2 - 脱氧 - D - рибофурано斯的结构和能量. 这些发现有助于通过分析NMR合来理解DNA和RNA结构.
科学领域:
- 计算化学计算化学
- 结构生物学 结构生物学
- 有机化学 有机化学
背景情况:
- 二氧化ββ-D-erythro-pentofuranose (2-deoxy-D-ribofuranose) 是DNA和RNA等生物相关分子中的一个关键组成部分.
- 了解基甲基侧链的结构偏好对于阐明核酸的结构功能关系至关重要.
- 之前的研究已经探讨了 furanose 环形状的各种方面,但基甲基组旋转体的特定影响需要详细的研究.
研究的目的:
- 研究基甲基构成 (gg,gt,tg旋转体) 对2-脱氧-D- рибо酸盐的构成能量和结构参数的影响.
- 利用ab initio和密度函数理论 (DFT) 的计算来预测和分析NMR旋转-旋转合常量 (J-合).
- 评估这些发现与DNA和RNA中观察到的形状的相关性,并评估结构模仿.
主要方法:
- 进行了初始分子轨道计算 (HF/6-31G),以确定不同外形状和甲基旋转子的结构能量和结构参数.
- 密度函数理论 (DFT,B3LYP/6-31G) 用于重新优化几何和计算NMR自旋-自旋合常量 (J(CH) 和J(CC)).
- 计算的J-合与不同旋转体的现有数据进行了比较,并且还研究了结构性扰动 (脱氧化,糖化).
主要成果:
- C4-C5键旋转显著改变了2-二氧化-D-利博酸盐的结构能量概况,gg,gt和tg旋转分子具有不同的最小值.
- 计算的NMR J-合 (2J(CH),3J(CH),2J(CC),3J(CC)) 与环和C4-C5键形状相关,验证了它们在形状赋值中的使用.
- 比起 gt 旋转器,gg 旋转器对 DNA 结构更相关,而无氧化类型 (4) 是 DNA 酸环的不恰当模仿.
结论:
- 这项研究证实了NMR J-合在确定 aldopentofuranosyl 环及其侧链的首选构造中的实用性.
- 对于gG旋转器来说,计算的J合提供了对DNA的构造偏好有价值的见解.
- 糖化效应的差异表明溶剂或特定环形配置对异构效应的影响.
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