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Updated: May 12, 2026
09:51
Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
Published on: July 16, 2017
INstruct: a database of high-quality 3D structurally resolved protein interactome networks.
Michael J Meyer1, Jishnu Das, Xiujuan Wang
1Department of Biological Statistics and Computational Biology and Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA.
Bioinformatics (Oxford, England)
|April 20, 2013
Summary
INstruct is a new database providing 3D protein interactome networks for humans and model organisms. It integrates structural and interaction data for detailed analysis of protein relationships.
Area of Science:
- Biochemistry
- Structural Biology
- Bioinformatics
Background:
- Protein-protein interactions are crucial for cellular functions.
- Understanding these interactions at a structural level is essential for biological research.
- Existing databases often lack comprehensive structural information for protein interactomes.
Purpose of the Study:
- To create a centralized database of high-quality, 3D, structurally resolved protein interactome networks.
- To integrate large-scale binary protein interaction data with atomic-resolution structural information.
- To provide a user-friendly web interface for exploring and analyzing protein interaction networks.
Main Methods:
- Combined available high-quality binary protein interaction data.
- Utilized atomic-resolution structural information from co-crystal evidence.
- Employed a tested interaction interface inference method.
- Developed a web interface for flexible searching and visualization.
Main Results:
- Established INstruct, a database of 3D protein interactome networks in human and six model organisms.
- Integrated structural and interaction data, highlighting protein interfaces.
- Enabled visualization of protein architecture and interaction interfaces.
- Provided functionality for downloading custom 3D interactome datasets.
Conclusions:
- INstruct offers a valuable resource for researchers studying protein-protein interactions.
- The database facilitates a deeper understanding of molecular mechanisms through structural insights.
- INstruct supports diverse research needs in structural biology and systems biology.
Related Concept Videos
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,...
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...
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.
01:24Protein 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.