DrForna:可视化对转录的折叠
Anda Ramona Tănasie1,2, Peter Kerpedjiev2, Stefan Hammer2
1Institute of Discrete Mathematics and Geometry, Technische Universität Wien, Vienna, Austria.
Bioinformatics (Oxford, England)
|September 8, 2023
概括
DrForna是一款新的应用程序,可视化转录期间的RNA折叠. 它允许用户看到RNA二次结构如何随着时间的推移而变化,有助于分析共转录折叠模拟.
科学领域:
- 计算生物学是一种计算生物学.
- 分子生物学分子生物学
- 生物信息学是一种生物信息学.
背景情况:
- RNA二次结构对于分子功能至关重要.
- 了解转录过程中的RNA折叠动态是必不可少的.
- 目前用于配转录折叠模拟的可视化工具不足.
研究的目的:
- 开发一种互动可视化工具,用于共转录RNA折叠模拟.
- 为了使RNA二次结构在转录过程中随着时间的推移而发生变化的探索.
主要方法:
- 开发DrForna,一个基于JavaScript的交互式可视化应用程序.
- 实施时间滚动功能,以在特定时间点查看结构性群体.
主要成果:
- DrForna提供了一种交互式的方式来可视化共转录RNA折叠的时间进程.
- 用户可以动态观察RNA二级结构的数量,因为它们在转录过程中形成.
结论:
- 福纳博士解决了在配写折叠研究中改善可视化的需求.
- 该工具可以在合成过程中更深入地了解RNA结构-功能关系.
更多相关视频
相关概念视频
Protein Folding
8.1K
Proteins are chains of amino acids linked together by peptide bonds. Upon synthesis, a protein folds into a three-dimensional conformation, critical to its biological function. Interactions between its constituent amino acids guide protein folding, and hence the protein structure is primarily dependent on its amino acid sequence.
Protein Structure Is Critical to Its Biological Function
Proteins perform a wide range of biological functions such as catalyzing chemical reactions, providing...
Protein Structure Is Critical to Its Biological Function
Proteins perform a wide range of biological functions such as catalyzing chemical reactions, providing...
8.1K
Protein Folding Quality Check in the RER
3.7K
ER is the primary site for the maturation and folding of soluble and transmembrane secretory proteins. The calnexin cycle is a specific chaperone system that folds and assesses the confirmation of N-glycosylated proteins before they can exit the ER lumen. The primary players of this quality check pipeline are the lectins, ER-resident chaperones, and a glucosyl transferase enzyme. In case the calnexin system in the lumen fails to salvage a misfolded protein, it is transported to the cytoplasm...
3.7K
Cotranslational Protein Translocation
7.4K
Translocation of proteins across membranes is an ancient process that occurs even in bacteria and archaebacteria. In fact, the components of the translocation machinery are still conserved between prokaryotes and eukaryotes.
Sec61 channel partners for cotranslational translocation
During cotranslational translocation, the Sec61 channel partners with the signal recognition particle (SRP), the signal recognition particle receptor (SR), and the ribosomes to transport the nascent polypeptide chain...
Sec61 channel partners for cotranslational translocation
During cotranslational translocation, the Sec61 channel partners with the signal recognition particle (SRP), the signal recognition particle receptor (SR), and the ribosomes to transport the nascent polypeptide chain...
7.4K
Molecular Chaperones and Protein Folding
13.1K
13.1K
Export of Misfolded Proteins out of the ER
3.6K
After folding, the ER assesses the quality of secretory and membrane proteins. The correctly folded proteins are cleared by the calnexin cycle for transport to their final destination, while misfolded proteins are held back in the ER lumen. The ER chaperones attempt to unfold and refold the misfolded proteins but sometimes fail to achieve the correct native conformation. Such terminally misfolded proteins are then exported to the cytosol by ER-associated degradation or ERAD pathway for...
3.6K
Coat Assembly and GTPases
3.6K
Vesicles incorporate different coat protein subunits in different cell locations, which changes the properties of the coat, such as the shape and geometry of the transport vesicles. Thus, vesicle coat proteins also play a significant role in cargo selection.
Coat assembly depends on the local availability of phosphatidylinositol phosphates or PIPs and GTP-binding proteins. Adaptor proteins, which link the coat proteins to the membrane, bind to these PIPs and play a crucial role in controlling...
Coat assembly depends on the local availability of phosphatidylinositol phosphates or PIPs and GTP-binding proteins. Adaptor proteins, which link the coat proteins to the membrane, bind to these PIPs and play a crucial role in controlling...
3.6K


