大型蛋白质系统的核磁共振研究。
NMR studies of large protein systems.
作者信息
Tzeng Shiou-Ru, Pai Ming-Tao, Kalodimos Charalampos G
机构信息
Department of Chemistry and Chemical Biology, Rutgers University, Piscataway, NJ, USA.
出版信息
Methods Mol Biol. 2012;831:133-40. doi: 10.1007/978-1-61779-480-3_8.
Abstract
Over the recent years, there has been increased interest in applying NMR spectroscopy for the characterization of proteins and protein complexes of large molecular weight. The combination of multidimensional NMR, novel pulse sequences allowing for the selection of slowly relaxing coherence pathways, and the development of a range of labeling techniques has enabled high-resolution NMR analyses of supramolecular systems of even megadalton size. Here, we describe how NMR can be used to obtain structural information in large systems by using as an example the recent structure determination of SecA ATPase (204 kDa) in complex with a signal peptide.
摘要
近年来，人们对应用核磁共振光谱法来表征大分子量蛋白质和蛋白质复合物的兴趣日益浓厚。多维核磁共振、允许选择缓慢弛豫相干路径的新型脉冲序列以及一系列标记技术的发展相结合，使得对甚至兆道尔顿大小的超分子系统进行高分辨率核磁共振分析成为可能。在此，我们以最近测定与信号肽结合的SecA ATP酶（204 kDa）的结构为例，描述如何利用核磁共振在大型系统中获取结构信息。
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本文引用的文献
1
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2
Methyl groups as probes of supra-molecular structure, dynamics and function.甲基作为超分子结构、动力学和功能的探针。
J Biomol NMR. 2010 Jan;46(1):75-87. doi: 10.1007/s10858-009-9376-1. Epub 2009 Sep 27.
3
A new labeling method for methyl transverse relaxation-optimized spectroscopy NMR spectra of alanine residues.一种用于丙氨酸残基甲基横向弛豫优化谱核磁共振谱的新标记方法。
J Am Chem Soc. 2007 Dec 19;129(50):15428-9. doi: 10.1021/ja0761784. Epub 2007 Nov 28.
4
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5
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6
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