Related Experiment Video
Updated: Jul 3, 2026
09:51
Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
Published on: July 16, 2017
Website review: protein-protein interactions on the web
1Bioinformatics Division, HGMP-RC Hinxton, Cambridge CB10 1SB, UK.
Comparative and Functional Genomics
|July 17, 2008
Summary
This guide outlines key online resources for protein-protein interactions (PPIs). It covers databases of verified and inferred interactions, prediction tools, and literature mining resources for comprehensive PPI research.
Area of Science:
- Biochemistry
- Bioinformatics
- Computational Biology
Background:
- Protein-protein interactions (PPIs) are fundamental to virtually all biological processes.
- Understanding PPIs is crucial for deciphering cellular mechanisms and disease pathways.
- The rapid growth of biological data necessitates efficient resource discovery for PPI research.
Purpose of the Study:
- To provide a curated overview of essential internet-based resources for studying protein-protein interactions.
- To guide researchers in navigating available tools and databases for PPI analysis.
- To consolidate information on diverse PPI resources, including experimental and computational data.
Main Methods:
- Literature review and curation of publicly available online resources.
- Categorization of resources based on functionality: databases, prediction tools, and literature mining tools.
- Inclusion of organism-specific databases for targeted research.
Main Results:
- Identification of key databases featuring experimentally verified and computationally inferred PPIs.
- Highlighting of tools for predicting novel PPIs and extracting interaction data from scientific literature.
- Compilation of specialized, organism-specific databases for focused investigations.
Conclusions:
- A wealth of online resources exists to support protein-protein interaction research.
- Effective utilization of these diverse tools and databases can significantly advance biological understanding.
- This guide serves as a starting point for researchers seeking to explore the landscape of PPI information online.
Related Concept Videos
02:04Protein-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...
02:04Protein-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...
02:26Protein 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,...
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,...
02:26Protein 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,...
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,...
01:24Protein 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.
The primary structure of a protein is its amino acid sequence.
01:13Protein Organization
Overview