Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Protein Networks02:26

Protein Networks

4.5K
An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
4.5K
Protein Networks02:26

Protein Networks

2.8K
2.8K
Protein-protein Interfaces02:04

Protein-protein Interfaces

14.4K
Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a...
14.4K
Protein-Protein Interfaces02:04

Protein-Protein Interfaces

4.4K
4.4K
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

2.9K
Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order...
2.9K
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

2.1K
2.1K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Massive Data Management and Sharing Module for Connectome Reconstruction.

Brain sciences·2020
Same author

Anti-breast cancer and toxicity studies of total secondary saponin from Anemone raddeana Rhizome on MCF-7 cells via ROS generation and PI3K/AKT/mTOR inactivation.

Journal of ethnopharmacology·2020
Same author

Linkages between soil organic carbon fractions and carbon-hydrolyzing enzyme activities across riparian zones in the Three Gorges of China.

Scientific reports·2020
Same author

Rapid and direct identification of the origin of white tea with proton transfer reaction time-of-flight mass spectrometry.

Rapid communications in mass spectrometry : RCM·2020
Same author

Selective, highly efficient extraction of Cr(III), Pb(II) and Fe(III) from complex water environment with a tea residue derived porous gel adsorbent.

Bioresource technology·2020
Same author

Predicted CsSi compound: a promising material for photovoltaic applications.

Physical chemistry chemical physics : PCCP·2020

Related Experiment Video

Updated: Jan 13, 2026

A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports
07:35

A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports

Published on: October 13, 2023

2.1K

Relational subgraphs fused with complete subgraphs based on the knowledge graph for mining protein complexes.

Ruixue Zhao1,2, Dandan Zhang3,4, Yuantao Kou1,2

  • 1Agricultural Information Institute of Chinese Academy of Agricultural Sciences, Beijing, 100081, China.

Scientific Reports
|October 30, 2025
PubMed
Summary

This study introduces a novel knowledge graph approach to predict protein-protein interactions and discover protein complexes in Arabidopsis thaliana. The method successfully identified 336 potential protein complexes, advancing our understanding of plant molecular networks.

Keywords:
Complete subgraphsKnowledge graphProtein complexSubject knowledge discovery

More Related Videos

Evidence-based Knowledge Synthesis and Hypothesis Validation: Navigating Biomedical Knowledge Bases via Explainable AI and Agentic Systems
05:47

Evidence-based Knowledge Synthesis and Hypothesis Validation: Navigating Biomedical Knowledge Bases via Explainable AI and Agentic Systems

Published on: June 13, 2025

1.3K
Identification of Protein Complexes in Escherichia coli using Sequential Peptide Affinity Purification in Combination with Tandem Mass Spectrometry
14:58

Identification of Protein Complexes in Escherichia coli using Sequential Peptide Affinity Purification in Combination with Tandem Mass Spectrometry

Published on: November 12, 2012

48.8K

Related Experiment Videos

Last Updated: Jan 13, 2026

A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports
07:35

A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports

Published on: October 13, 2023

2.1K
Evidence-based Knowledge Synthesis and Hypothesis Validation: Navigating Biomedical Knowledge Bases via Explainable AI and Agentic Systems
05:47

Evidence-based Knowledge Synthesis and Hypothesis Validation: Navigating Biomedical Knowledge Bases via Explainable AI and Agentic Systems

Published on: June 13, 2025

1.3K
Identification of Protein Complexes in Escherichia coli using Sequential Peptide Affinity Purification in Combination with Tandem Mass Spectrometry
14:58

Identification of Protein Complexes in Escherichia coli using Sequential Peptide Affinity Purification in Combination with Tandem Mass Spectrometry

Published on: November 12, 2012

48.8K

Area of Science:

  • Plant molecular biology
  • Systems biology
  • Bioinformatics

Background:

  • Protein-protein interactions (PPIs) are crucial for cellular functions and network structures.
  • Interpretable domain knowledge discovery is essential for understanding complex PPIs.
  • Identifying protein complexes aids in elucidating downstream regulatory genes.

Purpose of the Study:

  • To construct a knowledge graph for interacting proteins in Arabidopsis thaliana.
  • To develop a relational subgraph-driven model for PPI prediction.
  • To discover protein complex structures using mined subgraphs.

Main Methods:

  • Constructed a knowledge graph using UniProt and PlaPPISite data for Arabidopsis thaliana.
  • Developed a PPI prediction model based on relational subgraphs.
  • Extracted complete subgraphs to identify potential protein complexes.

Main Results:

  • The knowledge graph contained 68,713 nodes and 109,496 relationships.
  • Predicted 1,232 PPIs, with 682 confirmed against STRING and BioGrid databases.
  • Identified 336 protein complexes through complete subgraph mining.

Conclusions:

  • The integrated knowledge mining method effectively discovers protein complexes.
  • This approach offers a novel strategy for analyzing protein complex structures.
  • Facilitates the identification of downstream regulatory genes in plants.