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相关概念视频

Cryo-electron Microscopy01:28

Cryo-electron Microscopy

3.3K
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...
3.3K
RNA Structure01:19

RNA Structure

4.8K
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...
4.8K
Nucleic Acid Structure01:25

Nucleic Acid Structure

6.1K
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...
6.1K
The DNA Helix01:07

The DNA Helix

20.8K
Deoxyribonucleic acid, or DNA, is the genetic material responsible for passing traits from generation to generation in all organisms and most viruses. DNA is composed of two strands of nucleotides that wind around each other to form a spring-like structure called a double helix. However, the double helix is not perfectly symmetrical. Instead, there are regularly occurring grooves in the structure. The major groove occurs where the sugar-phosphate backbones are relatively far apart. This space...
20.8K
Electron Microscope Tomography and Single-particle Reconstruction01:07

Electron Microscope Tomography and Single-particle Reconstruction

2.4K
Transmission electron microscopy (TEM) can be used to determine the 3D structure of biological samples with the help of techniques such as electron microscope tomography and single-particle reconstruction. While single-particle reconstruction can examine macromolecules and macromolecular complexes in vitro conditions only, tomography permits the study of cell components or small cells in vivo.
Electron Tomography
Electron tomography can be performed either in TEM or STEM (scanning transmission...
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相关实验视频

Updated: Jul 2, 2025

Do's and Don'ts of Cryo-electron Microscopy: A Primer on Sample Preparation and High Quality Data Collection for Macromolecular 3D Reconstruction
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Do's and Don'ts of Cryo-electron Microscopy: A Primer on Sample Preparation and High Quality Data Collection for Macromolecular 3D Reconstruction

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从冷电磁图绘制的全原子RNA结构确定.

Tao Li1, Jiahua He1, Hong Cao1

  • 1School of Physics and Key Laboratory of Molecular Biophysics of MOE, Huazhong University of Science and Technology, Wuhan, China.

Nature biotechnology
|February 23, 2024
PubMed
概括

EMRNA是一种新的方法,用于自动确定从冷-EM地图上的RNA结构. 它准确地构建全长RNA模型,显著优于现有的工具.

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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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A Robust Single-Particle Cryo-Electron Microscopy cryo-EM Processing Workflow with cryoSPARC, RELION, and Scipion
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A Robust Single-Particle Cryo-Electron Microscopy cryo-EM Processing Workflow with cryoSPARC, RELION, and Scipion

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相关实验视频

Last Updated: Jul 2, 2025

Do's and Don'ts of Cryo-electron Microscopy: A Primer on Sample Preparation and High Quality Data Collection for Macromolecular 3D Reconstruction
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Do's and Don'ts of Cryo-electron Microscopy: A Primer on Sample Preparation and High Quality Data Collection for Macromolecular 3D Reconstruction

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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 结构生物学
  • 计算生物学 计算生物学
  • 生物物理学的生物物理.

背景情况:

  • 从低温电子显微镜 (cryo-EM) 地图中确定RNA结构具有挑战性.
  • 现有的方法往往在RNA的准确性和完整性方面扎.

研究的目的:

  • 开发一种准确和自动化的方法,从冷EM数据中确定全长,全原子RNA结构.
  • 为了克服当前RNA结构确定技术的局限性.

主要方法:

  • EMRNA 集成了用于核酸检测的深度学习.
  • 它使用3D骨干跟踪和评分,考虑序列和次要结构.
  • 进行全原子RNA模型构建.

主要成果:

  • 在140个不同的RNA地图上,EMRNA获得了2.36 Å RMSD和0.86 TM-score的中位精度.
  • 它显示了高的残留物覆盖率 (93.30%) 和序列匹配 (95.30%).
  • 在准确性和覆盖范围方面,EMRNA显著超过了自动DRRAFTER,phenix.map_to_model和CryoREAD.

结论:

  • EMRNA提供了从冷-EM地图准确和自动确定全长RNA结构.
  • 该方法是高效的,在3分钟内构建一个100nt结构.
  • EMRNA代表了RNA结构生物学研究的重大进步.