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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 Dynamics in Living Cells01:19

Protein Dynamics in Living Cells

Different fluorescence-based techniques are used to study the protein dynamics in living cells. These techniques include FRAP, FRET, and PET.
Fluorescent recovery after photobleaching (FRAP) is a fluorescent-protein-based detection technique used to quantify protein movement rates within the cell. This method exposes a small portion of the cell to an intense laser beam. The laser beam causes permanent photobleaching of the fluorophore-tagged proteins in the exposed region. As the bleached...
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...

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Related Experiment Video

Updated: Jun 18, 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

Geometric evolutionary dynamics of protein interaction networks.

Natasa Przulj1, Oleksii Kuchaiev, Aleksandar Stevanović

  • 1Department of Computer Science, University of California, Irvine, CA 92697-3425, USA. natasha@ics.uci.edu

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
|November 13, 2009
PubMed
Summary

This study introduces a new model for protein-protein interaction (PPI) network evolution. It integrates geometric properties with evolutionary dynamics to better explain cellular network wiring.

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Related Experiment Videos

Last Updated: Jun 18, 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

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

Quantification of Protein Interaction Network Dynamics using Multiplexed Co-Immunoprecipitation
07:57

Quantification of Protein Interaction Network Dynamics using Multiplexed Co-Immunoprecipitation

Published on: August 21, 2019

Area of Science:

  • Systems Biology
  • Network Science
  • Evolutionary Biology

Background:

  • Protein-protein interaction (PPI) networks are crucial for cellular processes.
  • Understanding the evolution of these networks is a central challenge in systems biology.
  • Existing models often focus on specific properties like degree distributions or binding domains.

Purpose of the Study:

  • To develop a novel theoretical model for PPI network evolution.
  • To integrate geometric network properties with evolutionary dynamics.
  • To create a model that accurately represents current PPI network data.

Main Methods:

  • Developing a new computational model for network evolution.
  • Integrating geometric network properties into evolutionary dynamics.
  • Testing the model's fit against existing PPI network data.

Main Results:

  • The proposed model successfully explains the structure and evolution of PPI networks.
  • The integrated approach yields well-fitting network models.
  • This model provides a more comprehensive understanding of cellular network wiring.

Conclusions:

  • A novel model combining geometric properties and evolutionary dynamics enhances understanding of PPI network formation.
  • This integrated approach offers a robust framework for studying biological network evolution.
  • The model contributes to deciphering the complex organization of cellular systems.