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Related Concept Videos

Protein Networks02:26

Protein Networks

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,...
Protein Networks02:26

Protein Networks

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,...
Protein-protein Interfaces02:04

Protein-protein Interfaces

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 polypeptide...
Protein-Protein Interfaces02:04

Protein-Protein Interfaces

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 polypeptide...
Protein Organization01:24

Protein Organization

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.
Protein Organization01:13

Protein Organization

Overview

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Related Experiment Video

Updated: Jul 10, 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

Interactive three-dimensional visualization and contextual analysis of protein interaction networks.

Edwin Ho1, Richard Webber, Marc R Wilkins

  • 1School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW 2052, Australia.

Journal of Proteome Research
|November 21, 2007
PubMed
Summary

This study adapted the GEOMI platform for visualizing protein interactions alongside proteomic data. Interactive 3-D network visualizations offer new insights into the cell

More Related Videos

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay (PCA) in Living Cells
08:38

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay (PCA) in Living Cells

Published on: March 3, 2015

Related Experiment Videos

Last Updated: Jul 10, 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

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay (PCA) in Living Cells
08:38

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay (PCA) in Living Cells

Published on: March 3, 2015

Area of Science:

  • Molecular Biology
  • Systems Biology
  • Bioinformatics

Background:

  • Understanding the protein interactome is crucial for deciphering cellular biology.
  • Co-visualizing protein interactions with diverse proteomic data is needed for deeper biological insights.

Purpose of the Study:

  • To adapt the GEOMI 3-D network visualization platform for co-analyzing protein-protein interaction networks with proteomic parameters.
  • To generate novel interactome views integrating multiple data types for biological discovery.

Main Methods:

  • Adaptation of the GEOMI platform for multidimensional data integration.
  • Co-analysis of protein-protein interaction networks with protein localization, abundance, physicochemical properties, post-translational modifications, and Gene Ontology classifications.
  • Construction of organelle-specific interaction networks and integration of yeast two-hybrid data with stable protein complexes.

Main Results:

  • Interactive 3-D visualizations provide insights into interactome complexity and cellular architecture.
  • Development of the first organelle-specific protein interaction networks, revealing biologically significant sub-interactomes.
  • Generation of novel interactome views by combining yeast two-hybrid data and stable protein complexes to represent stable and transient interactions.

Conclusions:

  • The adapted GEOMI platform enables comprehensive analysis of the interactome by integrating diverse proteomic data.
  • Organelle-specific and integrated interactome networks offer unprecedented views into cellular organization and function.
  • This approach advances the study of both stable and transient protein interactions within the cell.