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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,...
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...
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

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 to...
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

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 to...
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...

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Related Experiment Video

Updated: Jun 22, 2026

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics
07:28

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

Published on: October 19, 2021

A complex-centric view of protein network evolution.

Nir Yosef1, Martin Kupiec, Eytan Ruppin

  • 1The Blavatnik School of Computer Science, Department of Molecular Microbiology and Biotechnology and School of Medicine, Tel-Aviv University, Tel-Aviv 69978, Israel.

Nucleic Acids Research
|May 26, 2009
PubMed
Summary
This summary is machine-generated.

Protein complexes evolve as cohesive units, forming early in evolutionary history. Gene duplication significantly contributes to the evolution of protein complexes, particularly through duplicated homodimers.

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: Jun 22, 2026

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics
07:28

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

Published on: October 19, 2021

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:

  • Evolutionary biology
  • Systems biology
  • Bioinformatics

Background:

  • Protein-protein interaction networks are now available for multiple species.
  • Studying protein complexes in an evolutionary context is now feasible.

Purpose of the Study:

  • To present a novel network-based framework for reconstructing the evolutionary history of protein complexes.
  • To generalize evolutionary measures from single proteins to entire subnetworks.
  • To account for both sequence and interaction changes in evolutionary analysis.

Main Methods:

  • Computed sets of orthologous complexes across species.
  • Derived evolutionary rate and age measures for protein complexes.
  • Generalized evolutionary measures to whole subnetworks, considering sequence and interaction changes.

Main Results:

  • Observed significant correlations between evolutionary properties of complexes and their member proteins.
  • Found that protein complexes appear to form early and evolve cohesively.
  • Quantified the role of gene duplication in complex evolution, with about 25% originating from duplicated homodimer cores.

Conclusions:

  • Protein complexes evolve as coherent units, supporting early formation in evolutionary history.
  • Gene duplication plays a crucial role in the evolution of protein complexes.
  • The developed framework allows for direct quantification of gene duplication's impact on complex evolution.