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相关概念视频

Cryo-electron Microscopy01:28

Cryo-electron Microscopy

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Conventional electron microscopy (EM) involves dehydration, fixation, and staining of biological samples, which distorts the native state of biological molecules and results in several artifacts. Also, the high-energy electron beam damages the sample and makes it difficult to obtain high-resolution images. These issues can be addressed using cryo-EM, which uses frozen samples and gentler electron beams. The technique was developed by Jacques Dubochet, Joachim Frank, and Richard Henderson, for...
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相关实验视频

Updated: Jun 19, 2025

Author Spotlight: Exploring Cellular Processes by Modeling Ligands in Cryo-EM Maps
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Author Spotlight: Exploring Cellular Processes by Modeling Ligands in Cryo-EM Maps

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基于概率的交互式局部对接到ChimeraX中的冷EM地图.

Randy J Read1, Eric F Pettersen2, Airlie J McCoy1

  • 1Department of Haematology, Cambridge Institute for Medical Research, University of Cambridge, Hills Road, Cambridge CB2 0XY, United Kingdom.

Acta crystallographica. Section D, Structural biology
|July 26, 2024
PubMed
概括
此摘要是机器生成的。

一个名为emplace_local的新程序通过执行本地搜索来加速冷电子显微镜 (cryo-EM) 地图解释. 这提高了计算速度和灵敏度,用于将组件对接到冷EM密度图中.

关键词:
奇米拉XX 奇米拉X低温电磁冷却仪的使用停靠的对接方式在 emplace_local 的位置.一个概率的概率.

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A Robust Single-Particle Cryo-Electron Microscopy cryo-EM Processing Workflow with cryoSPARC, RELION, and Scipion
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Single Particle Cryo-Electron Microscopy: From Sample to Structure
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Single Particle Cryo-Electron Microscopy: From Sample to Structure
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科学领域:

  • 结构生物学是结构生物学.
  • 生物物理学的生物物理.
  • 计算生物学是一种计算生物学.

背景情况:

  • 低温电子显微镜 (cryo-EM) 地图解释通常涉及已知或预测的组件结构的对接.
  • 这一过程对于低分辨率地图 (低于4 Å) 来说至关重要,但对于大型地图来说可能是计算密集的.
  • 预先了解部件位置可以显著加快对接.

研究的目的:

  • 开发一种更快,更灵敏的方法,将组件对接到冷电磁图中.
  • 实施本地搜索策略,用于在特定地图子卷内放置组件.
  • 利用现有的软件 (em_placement) 来实现一种新的本地搜索方法.

主要方法:

  • 在emplace_local程序中实现了一个基于Fourier空间概率的本地搜索算法.
  • 使用较小的搜索体积 (子体积) 来进行组件对接以提高效率.
  • 在ChimeraX中集成了一个交互式图形界面,用于定义搜索区域和评估结果.

主要成果:

  • 与全地图搜索相比,emplace_local程序显示了增强的计算速度.
  • 局部搜索显著提高了部件检测和放置的灵敏度.
  • ChimeraX接口可方便地设置和评估本地对接计算.

结论:

  • 当地搜索策略对于加快和提高在冷EM地图解释中组件对接的准确性是非常有效的.
  • 该emplace_local程序为结构生物学家提供了一种有价值的工具,用于使用低分辨率的冷EM数据.
  • 交互式可视化工具提高了冷EM中计算结构确定的可用性和效率.