Translation factor and RNA binding protein mRNA interactomes support broader RNA regulons for posttranscriptional control.
Translation factor and RNA binding protein mRNA interactomes support broader RNA regulons for posttranscriptional control.
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翻译因子和RNA结合蛋白mRNA相互作用组支持更广泛的RNA调节，用于转录后控制。
DOI：
10.1016/j.jbc.2023.105195
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发表时间：
2023-10
影响因子：
4.8
通讯作者：
Ashe, Mark P.
中科院分区：
文献类型：
--
作者：
Kershaw, Christopher J.;Nelson, Michael G.;Castelli, Lydia M.;Jennings, Martin D.;Lui, Jennifer;Talavera, David;Grant, Chris M.;Pavitt, Graham D.;Hubbard, Simon J.;Ashe, Mark P.
翻译的调控为调节细胞蛋白质组提供了一种快速而直接的机制。在真核生物中，核糖体向mRNA募集的已建立模型依赖于一组保守的翻译起始因子。然而，细胞如何编排和定义选择的个别mRNA的翻译，而不是其他潜在的胞质命运，是知之甚少。我们以前已经发现了显着的变化，在个别mRNA和一系列的翻译起始因子之间的相互作用。事实上，mRNA可以根据这些相互作用分为不同的类别，为理解不同的翻译起始模式提供框架。在这里，我们扩展了这种方法，包括新的mRNA相互作用的其他蛋白质参与塑造mRNA的细胞质命运的配置文件。这项工作定义了一组7个mRNA簇，基于它们与12个参与翻译和/或RNA结合的因子的相互作用谱。mRNA簇共享物理和功能特征，为相互作用谱提供了理论基础。此外，从主机的RNA结合蛋白的mRNA相互作用的配置文件的比较表明，有功能相关的mRNA的相互作用的定义模式。因此，这项工作定义了可能协调功能相关蛋白质合成的全球细胞质mRNA结合模块。
The regulation of translation provides a rapid and direct mechanism to modulate the cellular proteome. In eukaryotes, an established model for the recruitment of ribosomes to mRNA depends upon a set of conserved translation initiation factors. Nevertheless, how cells orchestrate and define the selection of individual mRNAs for translation, as opposed to other potential cytosolic fates, is poorly understood. We have previously found significant variation in the interaction between individual mRNAs and an array of translation initiation factors. Indeed, mRNAs can be separated into different classes based upon these interactions to provide a framework for understanding different modes of translation initiation. Here, we extend this approach to include new mRNA interaction profiles for additional proteins involved in shaping the cytoplasmic fate of mRNAs. This work defines a set of seven mRNA clusters, based on their interaction profiles with 12 factors involved in translation and/or RNA binding. The mRNA clusters share both physical and functional characteristics to provide a rationale for the interaction profiles. Moreover, a comparison with mRNA interaction profiles from a host of RNA binding proteins suggests that there are defined patterns in the interactions of functionally related mRNAs. Therefore, this work defines global cytoplasmic mRNA binding modules that likely coordinate the synthesis of functionally related proteins.
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DOI：
10.1093/bioinformatics/btu638
发表时间：
2015-01-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Anders S;Pyl PT;Huber W
通讯作者：
Huber W
影响因子：
4.5
作者：
Kershaw CJ;Costello JL;Castelli LM;Talavera D;Rowe W;Sims PF;Ashe MP;Hubbard SJ;Pavitt GD;Grant CM
通讯作者：
Grant CM
影响因子：
12.3
作者：
Castel SE;Levy-Moonshine A;Mohammadi P;Banks E;Lappalainen T
通讯作者：
Lappalainen T
影响因子：
12.3
作者：
Costello JL;Kershaw CJ;Castelli LM;Talavera D;Rowe W;Sims PFG;Ashe MP;Grant CM;Hubbard SJ;Pavitt GD
通讯作者：
Pavitt GD
影响因子：
64.8
作者：
Archer, Stuart K.;Shirokikh, Nikolay E.;Preiss, Thomas
通讯作者：
Preiss, Thomas