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An Assay for Quantifying Protein-RNA Binding in Bacteria
Published on: June 12, 2019
双价金属的电荷密度决定了RNA的稳定性
Eda Koculi1, Changbong Hyeon, D Thirumalai
1T. C. Jenkins Department of Biophysics, Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218, USA.
Journal of the American Chemical Society
|February 14, 2007
概括
RNA分子的稳定性对 counterions 很敏感. 二元金属阴离子电荷密度和包装效率显著影响RNA折叠和稳定性,正如实验和模拟所示.
科学领域:
- 生物化学 生物化学
- 分子生物学分子生物学
- 生物物理学的生物物理.
背景情况:
- RNA分子对其周围的离子环境表现出敏感性.
- 计数子在调节RNA结构和功能的过程中起着至关重要的作用.
- 了解离子-RNA相互作用是解读RNA折叠机制的关键.
研究的目的:
- 为了研究对抗子特性对RNA折叠稳定性的影响.
- 为了阐明离子电荷密度和RNA稳定性之间的关系.
- 探索包装效率在RNA结构完整性中的作用.
主要方法:
- 非自然化的凝电泳测量 ribozyme 折叠平衡.
- 尿素去化以确定RNA折叠的自由能量.
- 布朗的动力学模拟的多电解质行为.
主要成果:
- 随着双价金属的电荷密度增加,RNA的稳定性会增加.
- 对于小型和大型金属离子体都观察到类似的缩放关系.
- 实验发现与非特定的离子-RNA相互作用一致,而不是特定位点的化.
- 模拟支持RNA稳定性取决于对子电荷和包装效率.
结论:
- RNA的稳定性受到对抗性质的显著影响,特别是电荷密度和包装.
- 非特定的离子-RNA相互作用是RNA稳定的主要驱动力.
- 被排除的阳离子体积会影响阳离子包装,从而影响RNA的稳定性.
相关概念视频
Nucleic acids
Nucleic acids are the most important macromolecules for the continuity of life. They carry the cell's genetic blueprint and carry instructions for its functioning.
DNA and RNA
The two main types of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). DNA is the genetic material in all living organisms, ranging from single-celled bacteria to multicellular mammals. It is in the nucleus of eukaryotes and in the organelles, chloroplasts, and mitochondria. In prokaryotes, the...
DNA and RNA
The two main types of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). DNA is the genetic material in all living organisms, ranging from single-celled bacteria to multicellular mammals. It is in the nucleus of eukaryotes and in the organelles, chloroplasts, and mitochondria. In prokaryotes, the...
RNA Stability
Intact DNA strands can be found in fossils, while scientists sometimes struggle to keep RNA intact under laboratory conditions. The structural variations between RNA and DNA underlie the differences in their stability and longevity. Because DNA is double-stranded, it is inherently more stable. The single-stranded structure of RNA is less stable but also more flexible and can form weak internal bonds. Additionally, most RNAs in the cell are relatively short, while DNA can be up to 250 million...
Nucleic Acids
Nucleic acids are the most important macromolecules for the continuity of life. They carry the cell's genetic blueprint and carry instructions for its functioning.
DNA and RNA
The two main types of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). DNA is the genetic material in all living organisms, ranging from single-celled bacteria to multicellular mammals. It is in the nucleus of eukaryotes and in the organelles, chloroplasts, and mitochondria. In prokaryotes, the...
DNA and RNA
The two main types of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). DNA is the genetic material in all living organisms, ranging from single-celled bacteria to multicellular mammals. It is in the nucleus of eukaryotes and in the organelles, chloroplasts, and mitochondria. In prokaryotes, the...
RNA Stability
Intact DNA strands can be found in fossils, while scientists sometimes struggle to keep RNA intact under laboratory conditions. The structural variations between RNA and DNA underlie the differences in their stability and longevity. Because DNA is double-stranded, it is inherently more stable. The single-stranded structure of RNA is less stable but also more flexible and can form weak internal bonds. Additionally, most RNAs in the cell are relatively short, while DNA can be up to 250 million...
mRNA Stability and Gene Expression
The structure and stability of mRNA molecules regulates gene expression, as mRNAs are a key step in the pathway from gene to protein. In eukaryotes, the half-life of mRNA varies from a few minutes up to several days. mRNA stability is essential in growth and development. The absence of the proteins regulating its stability, such as tristetraprolin in mice, can cause systemic issues, including bone marrow overgrowth, inflammation, and autoimmunity.
Cis-acting Elements involved in mRNA stability
Cis-acting Elements involved in mRNA stability
Nucleic Acid Structure
The pentose sugar in DNA is deoxyribose, while in RNA the pentose sugar is ribose. The difference between the sugars is the presence of the hydroxyl group on the ribose's second carbon and a hydrogen on the deoxyribose's second carbon. The phosphate residue attaches to the hydroxyl group of the 5′ carbon of one sugar and the hydroxyl group of the 3′ carbon of the sugar of the next nucleotide, which forms a 5′ to 3′ phosphodiester linkage.
DNA Structure
DNA has a double-helix structure. The...
DNA Structure
DNA has a double-helix structure. The...

