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相关概念视频

RNA Structure01:19

RNA Structure

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The basic structure of RNA consists of a string of ribonucleotides attached by phosphodiester bonds. Although most RNA is single-stranded, it can form complex secondary and tertiary structures. Such structures play essential roles in the regulation of transcription and translation.
Different Types of RNA Have the Same Basic Structure
There are three main types of ribonucleic acid (RNA) involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three...
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Nucleic Acid Structure01:25

Nucleic Acid Structure

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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...
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RNA Stability01:53

RNA Stability

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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...
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相关实验视频

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Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
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从DMS反应性来描述3DRNA结构特征.

D H Sanduni Deenalattha1, Chris P Jurich1, Bret Lange1

  • 1Department of Chemistry, University of Nebraska, 639 North 12 St, Lincoln, NE 68588, USA.

bioRxiv : the preprint server for biology
|November 28, 2024
PubMed
概括
此摘要是机器生成的。

硫酸二甲基 (DMS) 的化学测绘揭示了RNA结构细微差别. 在DMS反应性中,偏离标准的沃森-克里克基配对规则,可以让我们深入了解复杂的RNA3D构造和动态.

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科学领域:

  • 分子生物学分子生物学
  • 生物化学 生物化学
  • 结构生物学 结构生物学

背景情况:

  • 硫酸二甲基 (DMS) 是一种用于研究RNA结构的化学探针.
  • DMS反应性通常表明核酸可访问性:低反应性表明沃森-克里克 (WC) 基对,而高反应性意味着未配对的核酸.
  • 之前的研究发现了这一规则的例外,但这些异常值的频率和结构基础尚未完全理解.

研究的目的:

  • 在大量RNA结构数据集中系统地分析DMS反应模式.
  • 识别与非正规DMS反应相关的反复出现的3D结构特征.
  • 探索DMS反应的潜力,用于详细的RNA结构和动态建模.

主要方法:

  • 从7500个已知3D结构的RNA结构中对DMS反应性数据进行系统分析.
  • DMS反应性值与基配对状态 (WC与非WC),溶剂可访问性,结,堆叠和结交动态的相关性.
  • 针对原子距离和基数对几何学的非正规对的DMS反应性的研究.

主要成果:

  • DMS的反应性跨越四个数量级,WC和非WC核酸之间~10%的重叠.
  • 具有受保护的DMS反应性的非WC基体显示出增加的键和减少溶剂可访问性.
  • 具有更高DMS反应性的WC对通常位于结点,与较弱的基层堆叠和更高的动力学有关.
  • 非正规对中的DMS反应性与几何参数相关,允许对3D形状进行区分.

结论:

  • DMS化学映射提供了 RNA 3D 结构的原子级分辨率,超出了简单的基配对状态.
  • DMS反应率的偏差与特定的结构特征有关,例如结,溶剂可访问性和连接动力学.
  • 可以利用DMS反应模式来构建更准确的RNA结构和动态模型.