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 Folding01:25

Protein Folding

8.6K
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...
8.6K
Allosteric Proteins-ATCase01:19

Allosteric Proteins-ATCase

5.9K
Binding sites linkages can regulate a protein's function.  For example, enzyme activity is often regulated through a feedback mechanism where the end product of the biochemical process serves as an inhibitor.
Aspartate transcarbamoylase (ATCase) is a cytosolic enzyme that catalyzes the condensation of L-aspartate and carbamoyl phosphate to  N-carbamoyl-L-aspartate. This reaction is the first step in pyrimidine biosynthesis. UTP and CTP, the end products of the pyrimidine synthesis...
5.9K
Wald-Wolfowitz Runs Test II01:17

Wald-Wolfowitz Runs Test II

316
The Wald-Wolfowitz runs test, commonly referred to as the runs test, is a nonparametric test used to assess the randomness of ordered data. The test evaluates the number of runs, which are consecutive sequences of similar elements within the data. If the number of runs is significantly higher or lower than expected, the data is considered non-random, indicating a detectable pattern or structure.
For binary data, runs are identified using symbols such as + and −, or equivalently, 1s and...
316
Atomic Force Microscopy01:08

Atomic Force Microscopy

3.6K
Atomic force microscopy (AFM) is a type of scanning probe microscopy that can analyze topographic details of various specimens like ceramics, glass, polymers, and biological samples. AFM offers over 1000 times more resolution than the optical imaging system. Images generated from AFM are three-dimensional surface profiles, offering an advantage over the flat, two-dimensional images from other imaging techniques.
The AFM Probe
The probe is regarded as the heart of any AFM setup and comprises the...
3.6K
Assembly of Cytoskeletal Filaments01:18

Assembly of Cytoskeletal Filaments

21.4K
Cytoskeletal filaments are polymeric forms of smaller protein subunits. However, individual cytoskeletal filaments may easily disassemble or associate with other similar filaments to form rigid structures. Microfilaments, made of actin monomers, rely on actin-binding proteins to form bundles and create networks of individual actin filaments. Microtubules rely on microtubule-associated proteins (MAPs) to form sturdy cylindrical structures. However, the proteins involved in forming complex...
21.4K
Caspases01:24

Caspases

12.7K
Caspase, a family of cysteine proteases, serve as effectors in apoptosis. The ced3 gene in C.elegans was first identified to be involved in apoptosis. This gene encodes the ced-3 caspase that is similar to the interleukin-1-beta converting enzyme or ICE in mammals. In addition to apoptosis, caspases also function in the inflammatory response. Inflammatory caspases are essential in activating pro-inflammatory cytokines that recruit immune cells and block the replication of pathogens inside...
12.7K

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

Blind prediction of complex water and ion ensembles around RNA in CASP16.

bioRxiv : the preprint server for biology·2025
Same author

Blind Prediction of Complex Water and Ion Ensembles Around RNA in CASP16.

Proteins·2025
Same author

Structural host-virus interactome profiling of intact infected cells.

Nature communications·2025
Same author

Engaging the Community: CASP Special Interest Groups.

Proteins·2025
Same author

Redesigning error control in cross-linking mass spectrometry enables more robust and sensitive protein-protein interaction studies.

Molecular systems biology·2024
Same author

MoLPC2: improved prediction of large protein complex structures and stoichiometry using Monte Carlo Tree Search and AlphaFold2.

Bioinformatics (Oxford, England)·2024
Same journal

Engineered HSP90-MP65 Bivalent Fusion Antigen: A Novel Vaccine Candidate Against Invasive Candidiasis.

Proteins·2026
Same journal

Physics-Based Energy Functions for Computational Protein Design.

Proteins·2026
Same journal

Impact of Stabilizing Osmolytes on the Conformational Dynamics of Human and Rat Islet Amyloid Polypeptides.

Proteins·2026
Same journal

Stabilization of Bone Morphogenetic Protein-2 at Physiological pH: Contrasting Roles of CHAPS and Arginine in Aggregation Inhibition.

Proteins·2026
Same journal

Structural Insights Into the Function of Leishmania major Adenylosuccinate Lyase.

Proteins·2026
Same journal

Generalizing the Gaussian Network Model: Spanning-Tree Thermodynamics Shows Entropy-Driven KRAS Activation.

Proteins·2026
查看所有相关文章

相关实验视频

Updated: Sep 10, 2025

Automation of Bio-Atomic Force Microscope Measurements on Hundreds of C. albicans Cells
09:27

Automation of Bio-Atomic Force Microscope Measurements on Hundreds of C. albicans Cells

Published on: April 2, 2021

4.0K

在CASP16的AlphaFold3

Arne Elofsson1

  • 1Department of Biochemistry and Biophysics and Science for Life Laboratory, Stockholm University, Stockholm, Sweden.

Proteins
|August 25, 2025
PubMed
概括
此摘要是机器生成的。

在蛋白质复合体方面,AlphaFold3比AlphaFold2略有改善,但随着广泛的AlphaFold2采样,差异会减少. 虽然AlphaFold3在较简单的目标上表现良好,但在复杂的目标上表现不佳,这表明模型选择策略需要改进.

关键词:
阿尔法折叠美国预测RNA结构蛋白质结构预测

更多相关视频

Fluorescence Recovery after Photobleaching of Yellow Fluorescent Protein Tagged p62 in Aggresome-like Induced Structures
12:58

Fluorescence Recovery after Photobleaching of Yellow Fluorescent Protein Tagged p62 in Aggresome-like Induced Structures

Published on: March 26, 2019

15.1K
Analysis of Protein Folding, Transport, and Degradation in Living Cells by Radioactive Pulse Chase
08:59

Analysis of Protein Folding, Transport, and Degradation in Living Cells by Radioactive Pulse Chase

Published on: February 12, 2019

11.4K

相关实验视频

Last Updated: Sep 10, 2025

Automation of Bio-Atomic Force Microscope Measurements on Hundreds of C. albicans Cells
09:27

Automation of Bio-Atomic Force Microscope Measurements on Hundreds of C. albicans Cells

Published on: April 2, 2021

4.0K
Fluorescence Recovery after Photobleaching of Yellow Fluorescent Protein Tagged p62 in Aggresome-like Induced Structures
12:58

Fluorescence Recovery after Photobleaching of Yellow Fluorescent Protein Tagged p62 in Aggresome-like Induced Structures

Published on: March 26, 2019

15.1K
Analysis of Protein Folding, Transport, and Degradation in Living Cells by Radioactive Pulse Chase
08:59

Analysis of Protein Folding, Transport, and Degradation in Living Cells by Radioactive Pulse Chase

Published on: February 12, 2019

11.4K

科学领域:

  • 结构生物信息学
  • 计算生物学
  • 蛋白质结构预测

背景情况:

  • 通过AlphaFold2改变了蛋白质结构的预测.
  • 新的AlphaFold3模型承诺增强功能,包括非蛋白质分子预测.
  • 基准测试对于验证性能要求至关重要.

研究的目的:

  • 使用CASP16数据对AlphaFold3与AlphaFold2的性能进行评估.
  • 评估AlphaFold3对各种目标的准确性,包括蛋白质复合体和核酸.
  • 确定AlphaFold3的预测和模型选择策略需要改进的领域.

主要方法:

  • 使用AlphaFold3网络服务器进行预测 (AF3服务器).
  • 对大型目标和配体进行手动预测 (Elofsson组).
  • 将AlphaFold3结果与基于AlphaFold2的方法和CASP排名进行比较.

主要成果:

  • 在蛋白质复合体方面,AlphaFold3比AlphaFold2略有改善,特别是当AlphaFold2使用大规模采样时.
  • AF3服务器在更容易的CASP目标上表现优于AlphaFold2,但在更难的目标上却没有.
  • 预测大型复合体和核酸相互作用的精度有限,尽管与顶级方法相比具有竞争力.

结论:

  • AlphaFold3提供了一个用户友好的工具,其预测与最先进的方法相美.
  • 为了从生成的预测中更好地选择模型,需要进一步开发.
  • AlphaFold3代表了结构预测的重大进步,特别是在非蛋白质成分方面.