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利用核磁共振数据对大型大分子组装体进行信息驱动建模。

Information-driven modeling of large macromolecular assemblies using NMR data.

作者信息

van Ingen Hugo, Bonvin Alexandre M J J

机构信息

NMR Spectroscopy Research Group, Bijvoet Center for Biomolecular Research, Utrecht University, Faculty of Science - Chemistry, Padulaan 8, 3854 CH Utrecht, The Netherlands.

出版信息

J Magn Reson. 2014 Apr;241:103-14. doi: 10.1016/j.jmr.2013.10.021.

Abstract

Availability of high-resolution atomic structures is one of the prerequisites for a mechanistic understanding of biomolecular function. This atomic information can, however, be difficult to acquire for interesting systems such as high molecular weight and multi-subunit complexes. For these, low-resolution and/or sparse data from a variety of sources including NMR are often available to define the interaction between the subunits. To make best use of all the available information and shed light on these challenging systems, integrative computational tools are required that can judiciously combine and accurately translate the sparse experimental data into structural information. In this Perspective we discuss NMR techniques and data sources available for the modeling of large and multi-subunit complexes. Recent developments are illustrated by particularly challenging application examples taken from the literature. Within this context, we also position our data-driven docking approach, HADDOCK, which can integrate a variety of information sources to drive the modeling of biomolecular complexes. It is the synergy between experimentation and computational modeling that will provides us with detailed views on the machinery of life and lead to a mechanistic understanding of biomolecular function.

摘要

获得高分辨率原子结构是从机制上理解生物分子功能的先决条件之一。然而,对于诸如高分子量和多亚基复合物等有趣的系统而言,获取这种原子信息可能很困难。对于这些系统,通常可以从包括核磁共振(NMR)在内的各种来源获得低分辨率和/或稀疏数据,以定义亚基之间的相互作用。为了充分利用所有可用信息并阐明这些具有挑战性的系统,需要整合计算工具,这些工具可以明智地组合并将稀疏的实验数据准确地转化为结构信息。在这篇视角文章中,我们讨论可用于大型多亚基复合物建模的核磁共振技术和数据来源。文献中特别具有挑战性的应用实例说明了最近的进展。在此背景下,我们还介绍了我们的数据驱动对接方法HADDOCK,它可以整合各种信息来源来推动生物分子复合物的建模。正是实验与计算建模之间的协同作用将为我们提供关于生命机制的详细见解,并导致对生物分子功能的机制理解。

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