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相关概念视频

Protein Organization01:24

Protein Organization

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Proteins are polymers of amino acid residues. They are versatile and responsible for different cellular functions, including DNA replication, molecular transport, catalysis, and structural support. Proteins have a hierarchical structure comprising at least three levels of organization: primary, secondary, and tertiary structure. Some large proteins have a quaternary structure where individual protein subunits are linked together.
The primary structure of a protein is its amino acid sequence....
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Protein and Protein Structure02:15

Protein and Protein Structure

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Proteins are one of the most abundant organic molecules in living systems and have the most diverse range of functions of all macromolecules. Proteins may be structural, regulatory, contractile, or protective. They may serve in transport, storage, or membranes; or they may be toxins or enzymes. Their structures, like their functions, vary greatly. They are all, however, amino acid polymers arranged in a linear sequence.
A protein's shape is critical to its function. For example, an enzyme...
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Protein Folding01:22

Protein Folding

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Overview
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Protein Folding Quality Check in the RER01:29

Protein Folding Quality Check in the RER

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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...
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Conservation of Protein Domains Over Different Proteins02:26

Conservation of Protein Domains Over Different Proteins

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Protein domains are small structurally independent units that are part of a single amino acid chain.  Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to...
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相关实验视频

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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
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SSDraw:用于生成比较蛋白质二次结构图的软件.

Ethan A Chen1, Lauren L Porter1,2

  • 1National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, USA.

Protein science : a publication of the Protein Society
|November 13, 2023
PubMed
概括

SSDraw生成了蛋白质二次结构图表以供出版. 这个工具有助于通过可视化和对齐来比较同源蛋白质结构和特征.

关键词:
变形蛋白质是一种变形蛋白质.蛋白质的进化 蛋白质的进化蛋白质折叠切换 切换蛋白质折叠蛋白质折叠 蛋白质的折叠蛋白质结构 蛋白质结构结构生物信息学

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科学领域:

  • 结构生物学是结构生物学.
  • 生物信息学是一种生物信息学.
  • 计算生物学是一种计算生物学.

背景情况:

  • 蛋白质结构可视化对于理解功能至关重要.
  • 比较同类蛋白质需要能够对齐和显示结构特征的工具.
  • 现有的工具可能缺乏用于详细二次结构分析的全面功能.

研究的目的:

  • 介绍SSDraw,这是一个创新的程序,用于生成出版品质的蛋白质二次结构图.
  • 为了使二次结构与其他蛋白质特征之间的关系可视化.
  • 为了方便对同类蛋白质之间的二次结构进行比较.

主要方法:

  • SSDraw可以从3D蛋白质结构中生成图表.
  • 图表可以根据保护得分,B-因素或自定义得分进行着色.
  • 可以使用多个序列对齐进行线性可视化和比较来注册同类蛋白质图.

主要成果:

  • SSDraw可以制作高质量,可定制的蛋白质二次结构图.
  • 该程序允许从同类蛋白质注册和线性堆叠图.
  • 它有效地可视化了保存和分离的折叠和相关属性.

结论:

  • SSDraw是可视化和比较蛋白质二次结构的多功能工具.
  • 它通过整合各种分数方法和序列对齐来支持详细分析.
  • 源代码和Colab笔记本的可用性提高了研究人员的可访问性.