Department of Biochemistry and Molecular Genetics, University of Colorado Anschutz Medical Campus, 12801 East 17th Avenue, Aurora, CO 80045, USA.
Faculty of Pharmacy, Mansoura University, Mansoura 35516, Egypt.
Molecules. 2017 Jul 14;22(7):1176. doi: 10.3390/molecules22071176.
Although often depicted as rigid structures, proteins are highly dynamic systems, whose motions are essential to their functions. Despite this, it is difficult to investigate protein dynamics due to the rapid timescale at which they sample their conformational space, leading most NMR-determined structures to represent only an averaged snapshot of the dynamic picture. While NMR relaxation measurements can help to determine local dynamics, it is difficult to detect translational or concerted motion, and only recently have significant advances been made to make it possible to acquire a more holistic representation of the dynamics and structural landscapes of proteins. Here, we briefly revisit our most recent progress in the theory and use of exact nuclear Overhauser enhancements (eNOEs) for the calculation of structural ensembles that describe their conformational space. New developments are primarily targeted at increasing the number and improving the quality of extracted eNOE distance restraints, such that the multi-state structure calculation can be applied to proteins of higher molecular weights. We then review the implications of the exact NOE to the protein dynamics and function of cyclophilin A and the WW domain of Pin1, and finally discuss our current research and future directions.
尽管蛋白质通常被描绘为刚性结构,但实际上它们是高度动态的系统,其运动对于它们的功能至关重要。尽管如此,由于蛋白质在快速时间尺度上采样其构象空间,因此很难研究蛋白质的动力学,这导致大多数通过 NMR 确定的结构仅代表动态图景的平均快照。虽然 NMR 弛豫测量可以帮助确定局部动力学,但很难检测平移或协同运动,直到最近才取得重大进展,使得有可能更全面地描述蛋白质的动力学和结构景观。在这里,我们简要回顾一下我们在理论和使用精确核 Overhauser 增强(eNOE)方面的最新进展,用于计算描述其构象空间的结构集合。新的发展主要针对增加提取的 eNOE 距离约束的数量和提高其质量,以便可以将多态结构计算应用于更高分子量的蛋白质。然后,我们讨论了精确 NOE 对环孢素 A 和 Pin1 的 WW 结构域的蛋白质动力学和功能的影响,最后讨论了我们当前的研究和未来方向。