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

Protein and Protein Structures02:15

Protein and Protein Structures

10.8K
10.8K
Protein Organization01:24

Protein Organization

7.1K
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....
7.1K
Protein and Protein Structure02:15

Protein and Protein Structure

81.4K
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...
81.4K
Conservation of Protein Domains Over Different Proteins02:26

Conservation of Protein Domains Over Different Proteins

11.4K
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...
11.4K
Protein Folding01:25

Protein Folding

8.7K
Proteins are chains of amino acids linked together by peptide bonds. Upon synthesis, a protein folds into a three-dimensional conformation, critical to its biological function. Interactions between its constituent amino acids guide protein folding, and hence the protein structure is primarily dependent on its amino acid sequence.
Protein Structure Is Critical to Its Biological Function
Proteins perform a wide range of biological functions such as catalyzing chemical reactions, providing...
8.7K
Conservation of Protein Domains02:26

Conservation of Protein Domains

3.2K
3.2K

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

ADAPT-M: a workflow for rapid, quantitative in vitro measurements of enriched protein libraries.

Nature communications·2026
Same author

Preclinical development of engineered biomaterial-based artificial bladder demonstrating core functions in a large-animal orthotopic model.

Materials today. Bio·2026
Same author

Geometry-driven multimodal tactile sensors with high-fidelity perception enabled by strain-invariant oxidized liquid metal electrodes.

Materials horizons·2026
Same author

Programmable one-pot polymerase-mediated DNA synthesis via temperature control.

Nature communications·2026
Same author

Marital Satisfaction and Frailty in Later Life: Asymmetric, Gendered, and Distributional Associations.

Journal of applied gerontology : the official journal of the Southern Gerontological Society·2026
Same author

Temporal concentration trends of ammonia (NH<sub>3</sub>) and nitrogen dioxide (NO<sub>2</sub>) derived from paddy fields in South Korea by real-time monitoring.

Scientific reports·2026

相关实验视频

Updated: Sep 13, 2025

A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

68.9K

用SHAPES评估蛋白质结构的生成模型覆盖范围.

Tianyu Lu1, Melissa Liu1, Yilin Chen1

  • 1Department of Bioengineering, Stanford University, Stanford, CA, USA.

Cell systems
|July 30, 2025
PubMed
概括

蛋白质结构的生成模型通常会创建理想化的设计,缺少关键的功能元素. 一种名为SHAPES的新方法揭示了这些模型的样本下整个蛋白质结构空间,突出了改善蛋白质设计和预测的需求.

科学领域:

  • 计算生物学 计算生物学
  • 结构生物信息学 结构生物信息学
  • 人工智能在生物学中的应用

背景情况:

  • 生成模型擅长采样蛋白质结构,但对理想化的设计有偏见.
  • 这种偏见导致对蛋白质功能必不可少的复杂结构图案 (例如,循环) 的忽视.
  • 现有的模型不能充分反映蛋白质结构空间的全部多样性.

研究的目的:

  • 引入SHAPES (嵌入相似性蛋白质的结构和层次评估) 来评估蛋白质结构生成模型.
  • 通过五种最先进的生成模型来评估蛋白质结构空间的覆盖范围.
  • 确定当前生成模型中关于不同蛋白质结构采样的局限性.

主要方法:

  • 利用跨多个层次层次的结构嵌入,从局部几何到全球架构.
  • 使用Fréchet蛋白距离 (FPD) 来定量测量蛋白质结构的分布覆盖范围.
  • 分析了三级动机 (TERM) 的频率,以证实模型覆盖范围的发现.

主要成果:

  • 通过领先的生成模型揭示了观察到的蛋白质结构空间的实质性低样本.
  • 在不同的模型,噪音尺度和温度中表现出不同的覆盖行为.
  • 通过对三级动机频率的分析证实了模型的局限性.
关键词:
分销覆盖范围的覆盖范围.生成型模型的生成型模型.蛋白质设计 蛋白质设计

更多相关视频

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues
07:08

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues

Published on: July 14, 2015

7.4K
Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules
10:58

Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

Published on: July 25, 2013

17.2K

相关实验视频

Last Updated: Sep 13, 2025

A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

68.9K
Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues
07:08

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues

Published on: July 14, 2015

7.4K
Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules
10:58

Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

Published on: July 25, 2013

17.2K

结论:

  • 目前的蛋白质结构生成模型不能充分覆盖生物可能性的全部范围.
  • 改进的蛋白质序列设计和结构预测方法是必要的,以指导开发更全面的模型.
  • 增强模型对于推动蛋白质工程和设计领域的发展至关重要.