Not making the cut: Techniques to prevent RNA cleavage in structural studies of RNase-RNA complexes.
Not making the cut: Techniques to prevent RNA cleavage in structural studies of RNase-RNA complexes.
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DOI：
10.1016/j.yjsbx.2022.100066
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发表时间：
2022
影响因子：
--
通讯作者：
Gleghorn ML
中科院分区：
文献类型：
--
作者：
Jones SP;Goossen C;Lewis SD;Delaney AM;Gleghorn ML
已知前RNA切割RNase-RNA X射线晶体结构的调查。成功捕获RNA酶-RNA复合物切割前的策略概要。在选择成功的抑制方法时考虑酶机制。讨论同时使用不同的RNA切割抑制策略。建议在未来使用新技术来捕获RNase-RNA复合物。RNA酶在它们靶向切割的RNA结构和序列上是不同的，并且是细胞中的一种重要类型的酶。尽管已知的RNA酶的实例很多，并且具有确定的三维结构的那些实例很多，但是在切割之前与完整的同源RNA底物结合的RNA酶的实例相对较少。为了更好地理解RNA酶结构和RNA靶的序列特异性，已经开发了用于组装这些被捕获在预切割状态的酶复合物的体外方法用于许多不同的RNA酶。我们已经调查了蛋白质数据库的结构，并在此审查详细的方法，已成功地使用，并将它们与相应的结构。我们还为未来的方法发展提供了想法和建议。本文中的许多策略可以与X射线晶体学、cryo-EM和其他结构解析技术结合使用。我们的希望是，这一审查将被用作指导，以解决未来尚未确定的RNA酶底物复合物的结构。
A survey of known pre-RNA cleavage RNase–RNA X-ray crystal structures. A compendium of successful strategies to trap RNase–RNA complexes pre-cleavage. Consideration of enzymatic mechanism when choosing a successful inhibition method. Discussion of simultaneous use of different RNA cleavage-inhibiting strategies. Proposals for use of new techniques to capture RNase–RNA complexes in the future. RNases are varied in the RNA structures and sequences they target for cleavage and are an important type of enzyme in cells. Despite the numerous examples of RNases known, and of those with determined three-dimensional structures, relatively few examples exist with the RNase bound to intact cognate RNA substrate prior to cleavage. To better understand RNase structure and sequence specificity for RNA targets, in vitro methods used to assemble these enzyme complexes trapped in a pre-cleaved state have been developed for a number of different RNases. We have surveyed the Protein Data Bank for such structures and in this review detail methodologies that have successfully been used and relate them to the corresponding structures. We also offer ideas and suggestions for future method development. Many strategies within this review can be used in combination with X-ray crystallography, as well as cryo-EM, and other structure-solving techniques. Our hope is that this review will be used as a guide to resolve future yet-to-be-determined RNase–substrate complex structures.
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DOI：
10.1016/j.btre.2016.10.001
发表时间：
2016-12
期刊：
Biotechnology reports (Amsterdam, Netherlands)
影响因子：
--
作者：
El-Ashram S;Al Nasr I;Suo X
通讯作者：
Suo X
RNase R底物对RNA核糖甲基化敏感性的分子机制
影响因子：
14.9
作者：
Abula A;Li X;Quan X;Yang T;Liu Y;Guo H;Li T;Ji X
通讯作者：
Ji X
DOI：
10.1016/j.jbc.2021.100462
发表时间：
2021-01
期刊：
The Journal of biological chemistry
影响因子：
--
作者：
Ando T;Jongruja N;Okumura N;Morikawa K;Kanaya S;Takao T
通讯作者：
Takao T
影响因子：
16.8
作者：
de la Sierra-Gallay, IL;Mathy, N;Condon, C
通讯作者：
Condon, C
影响因子：
5.7
作者：
Dorleans, Audrey;de la Sierra-Gallay, Ines Li;Condon, Ciaran
通讯作者：
Condon, Ciaran