Xie Ping
Key Laboratory of Soft Matter Physics and Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China.
Biochem Biophys Rep. 2016 Jan 29;5:408-424. doi: 10.1016/j.bbrep.2016.01.017. eCollection 2016 Mar.
It has been characterized that the programmed ribosomal -1 frameshifting often occurs at the slippery sequence on the presence of a downstream mRNA pseudoknot. In some prokaryotic cases such as the gene of , an additional stimulatory signal-an upstream, internal Shine-Dalgarno (SD) sequence-is also necessary to stimulate the efficient -1 frameshifting. However, the molecular and physical mechanism of the -1 frameshifting is poorly understood. Here, we propose a model of the pathway of the -1 translational frameshifting during ribosome translation of the -1 frameshift mRNA. With the model, the single-molecule fluorescence data (Chen et al. (2014) [29]) on the dynamics of the shunt either to long pausing or to normal translation, the tRNA transit and sampling dynamics in the long-paused rotated state, the EF-G sampling dynamics, the mean rotated-state lifetimes, etc., are explained quantitatively. Moreover, the model is also consistent with the experimental data (Yan et al. (2015) [30]) on translocation excursions and broad branching of frameshifting pathways. In addition, we present some predicted results, which can be easily tested by future optical trapping experiments.
已表明,在下游mRNA假结存在的情况下,程序性核糖体-1移码通常发生在滑序列处。在一些原核生物的例子中,如某基因,一个额外的刺激信号——上游内部的夏因-达尔加诺(SD)序列——对于刺激有效的-1移码也是必需的。然而,-1移码的分子和物理机制仍知之甚少。在此,我们提出了一个在核糖体翻译-1移码mRNA期间-1翻译移码途径的模型。利用该模型,定量解释了关于分流至长暂停或正常翻译的动力学、长暂停旋转状态下的tRNA转运和采样动力学、EF-G采样动力学、平均旋转状态寿命等单分子荧光数据(Chen等人,2014年[29])。此外,该模型也与关于移位偏移和移码途径广泛分支的实验数据(Yan等人,2015年[30])一致。另外,我们给出了一些预测结果,这些结果可通过未来的光镊实验轻松验证。