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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 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...

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Related Experiment Video

Updated: Jul 5, 2026

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

Functional maps of protein complexes from quantitative genetic interaction data.

Sourav Bandyopadhyay1, Ryan Kelley, Nevan J Krogan

  • 1Program in Bioinformatics, University of California San Diego, La Jolla, California, United States of America.

Plos Computational Biology
|April 19, 2008
PubMed
Summary
This summary is machine-generated.

This study introduces a novel computational method integrating genetic and physical protein interactions to map protein complexes and their functions. The approach significantly improves accuracy in identifying functionally related protein pairs and reveals new insights into yeast chromosome organization.

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Related Experiment Videos

Last Updated: Jul 5, 2026

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay (PCA) in Living Cells
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Published on: March 3, 2015

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Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays
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Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays

Published on: November 12, 2012

Area of Science:

  • Systems biology
  • Computational biology
  • Genomics

Background:

  • Advanced screening technologies enable comprehensive quantification of genetic interactions between gene pairs.
  • Tandem affinity purification followed by mass spectroscopy (TAP-MS) identifies physical protein interactions, suggesting participation in the same molecular complex.

Purpose of the Study:

  • To develop a method for joint learning of protein complexes and their functional relationships.
  • To integrate quantitative genetic interactions and TAP-MS data for improved biological network analysis.

Main Methods:

  • Joint learning framework integrating genetic interaction data and TAP-MS data.
  • Validation using three independent benchmark datasets.
  • Application to genes involved in yeast chromosome organization.

Main Results:

  • The proposed method demonstrates >50% higher accuracy in identifying functionally related protein pairs compared to previous methods.
  • A functional map of 91 multimeric complexes involved in yeast chromosome organization was identified, including novel complexes and expanded subunits.
  • Complexes enriched for aggravating genetic interactions (synthetic lethality) were found to be more likely to contain essential genes.

Conclusions:

  • Integration of large-scale genetic and physical interaction data is crucial for mapping pathway architecture and function.
  • The developed method enhances the accuracy of protein complex and functional relationship identification.
  • The findings provide mechanistic links between genetic interactions, essential genes, and protein complex function.