Jove
Visualize
联系我们
JoVE
x logofacebook logolinkedin logoyoutube logo
关于 JoVE
概览领导团队博客JoVE 帮助中心
作者
出版流程编辑委员会范围与政策同行评审常见问题投稿
图书馆员
用户评价订阅访问资源图书馆顾问委员会常见问题
研究
JoVE JournalMethods CollectionsJoVE Encyclopedia of Experiments存档
教育
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab Manual教师资源中心教师网站
使用条款与条件
隐私政策
政策

相关概念视频

Conservation of Protein Domains Over Different Proteins02:26

Conservation of Protein Domains Over Different Proteins

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 form...
Conservation of Protein Domains02:26

Conservation of Protein Domains

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 form...
Protein Dynamics in Living Cells01:19

Protein Dynamics in Living Cells

Different fluorescence-based techniques are used to study the protein dynamics in living cells. These techniques include FRAP, FRET, and PET.
Fluorescent recovery after photobleaching (FRAP) is a fluorescent-protein-based detection technique used to quantify protein movement rates within the cell. This method exposes a small portion of the cell to an intense laser beam. The laser beam causes permanent photobleaching of the fluorophore-tagged proteins in the exposed region. As the bleached...

您也可能阅读

相关文章

通过共同作者、期刊和引用图与本文相关的文章。

排序
Same author

Cationic imidazolium macrocycles enable array-based, site-selective optical detection of peptide phosphorylation.

Organic & biomolecular chemistry·2026
Same author

Revealing Imatinib-Kinase Specificity via Analyzing Changes in Protein Dynamics and Computing Molecular Binding Affinity.

The journal of physical chemistry. B·2026
Same author

Pharmacokinetic Drug-Drug Interaction of Leritrelvir in Healthy Chinese Volunteers: A Single-Arm, Open-Label, Dual-Cohort Study.

Clinical drug investigation·2026
Same author

Mechanistic Dissection of Conformational Transition of Bicyclic Peptide via Molecular Modeling and Deep Learning.

bioRxiv : the preprint server for biology·2026
Same author

IEPDYN: Integral-equation formalism of population dynamics.

The Journal of chemical physics·2026
Same author

Structural insight into hierarchical DNMT3A autoinhibition and its dysregulation in disease.

Nature communications·2026

相关实验视频

Updated: May 12, 2026

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
09:51

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

15.4K

通过生成性深度学习采样高度动态蛋白质的合规组合.

Talant Ruzmetov1, Ta I Hung1,2, Saisri Padmaja Jonnalagedda3

  • 1Department of Chemistry, University of California, Riverside, CA92521.

Research square
|July 9, 2024
PubMed
概括

本研究介绍了内部坐标网 (ICoN),这是一种用于蛋白质结构分析的深度学习模型. ICoN有效地采样蛋白质动力学并识别新型构造,有助于理解内在无序蛋白质 (IDPs) 和疾病机制.

更多相关视频

Structure-Based Simulation and Sampling of Transcription Factor Protein Movements along DNA from Atomic-Scale Stepping to Coarse-Grained Diffusion
09:17

Structure-Based Simulation and Sampling of Transcription Factor Protein Movements along DNA from Atomic-Scale Stepping to Coarse-Grained Diffusion

Published on: March 1, 2022

3.1K
Author Spotlight: Advancing Alzheimer's Research – Exploring Early Detection and Multi-Omics Approaches
09:47

Author Spotlight: Advancing Alzheimer's Research – Exploring Early Detection and Multi-Omics Approaches

Published on: December 15, 2023

1.0K

相关实验视频

Last Updated: May 12, 2026

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
09:51

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

15.4K
Structure-Based Simulation and Sampling of Transcription Factor Protein Movements along DNA from Atomic-Scale Stepping to Coarse-Grained Diffusion
09:17

Structure-Based Simulation and Sampling of Transcription Factor Protein Movements along DNA from Atomic-Scale Stepping to Coarse-Grained Diffusion

Published on: March 1, 2022

3.1K
Author Spotlight: Advancing Alzheimer's Research – Exploring Early Detection and Multi-Omics Approaches
09:47

Author Spotlight: Advancing Alzheimer's Research – Exploring Early Detection and Multi-Omics Approaches

Published on: December 15, 2023

1.0K

科学领域:

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

背景情况:

  • 蛋白质构成组合对于生物功能至关重要,特别是对于内在无序蛋白质 (IDPs).
  • 理解和计算采样这些组合,特别是像粉样蛋白-β42 (Aβ42) 这样的动态蛋白质,提出了重大挑战.
  • 现有的方法很难全面探索蛋白质的庞大构造格局.

研究的目的:

  • 开发一个无监督的深度学习模型,内部坐标网 (ICoN),用于学习和采样蛋白质结构动态.
  • 快速识别具有复杂结构安排的新型合成蛋白质构造.
  • 将ICoN应用于粉胺-β42单体,以全面采样其构造格局并合理化实验发现.

主要方法:

  • 开发了一个无监督的深度学习模型,内部坐标网 (ICoN),训练了分子动力学 (MD) 模拟数据.
  • 利用ICoN内部的潜空间插值来产生新的合成形态.
  • 将ICoN模型应用于粉胺-β42单体,以探索其结构格局.

主要成果:

  • ICoN成功地从MD数据中学习了蛋白质构造变化的物理原理.
  • 该模型有效地生成了具有复杂的骨干和侧链安排的新型合成构造.
  • 对Aβ42单体的形状格局进行全面采样,揭示了功能相关的集群和合理化的实验数据.
  • 确定了具有原子细节和明显侧链重排的新型构造,经过EPR和氨基酸替代研究验证.

结论:

  • 内部坐标网 (ICoN) 提供了一种强大且可转移的深度学习方法,用于采样蛋白质构造组合.
  • 该方法增强了对蛋白质动态,IDP和与疾病相关的蛋白质聚合物的理解.
  • 深度学习可以有效地利用学习的原子运动来进行先进的蛋白质构成采样和发现.