通过NMR和分子动力学模拟来区分的螺旋形状
Darón I Freedberg1, Richard M Venable, Angelo Rossi
1Contribution from the Laboratory of Biophysics, Center for Biologics Evaluation and Research, Food and Drug Administration, 1401 Rockville Pike, Rockville, MD 20852, USA.
核磁共振 (NMR) 实验和分子动力学模拟证实,Ac-WAAAH ((AAARA) ((3) A-NH ((2) 采用了α-螺旋结构. 这些研究没有在特定的残留物位置发现3(10) -或pi-螺旋形状的证据.
科学领域:
- 生物物理化学 生物物理化学
- 结构生物学 结构生物学
- 计算化学计算化学
背景情况:
- 二次结构,如α-螺旋体,3(10) -螺旋体和pi-螺旋体,对于蛋白质的功能至关重要.
- 区分这些螺旋形状需要精确的结构分析.
研究的目的:
- 使用核磁共振 (NMR) 光谱学研究 Ac-WAAAH ((AAARA) ((3) A-NH ((2) 的螺旋结构.
- 为了确定中存在或缺少特定的螺旋形状 (3(10),alpha-和pi-helices) 的存在.
主要方法:
- 在选择性标记的同位素 ((15) N和 (13) C) 上利用了HNCO NMR脉冲序列.
- 执行了不同参数集的分子动力学 (MD) 模拟 (CHARMM22/CMAP与CHARMM22).
- 通过循环二元化 (CD) 研究证实了NMR发现.
主要成果:
- 核磁共振实验明确显示了的中心有一个α螺旋结构.
- 在探测到的残留物位置上没有检测到可辨认的3(10) -或pi-螺旋结构.
- 使用CHARMM22/CMAP的MD模拟准确地预测了α螺旋,而CHARMM22预测了pi螺旋.
结论:
- 酸Ac-WAAAH ((AAARA) ((3) A-NH ((2) 主要形成一个α螺旋,与CD数据一致.
- 与CHARMM22.22相比,CHARMM22/CMAP力场对于模拟该的α螺旋结构更为准确.
- 核磁共振和计算方法为二次结构的确定提供了互补的见解.
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