Related Experiment Video
Updated: Jul 5, 2026
09:39
Mapping Dysfunctional Protein-Protein Interactions in Disease
Published on: October 24, 2025
Using Dali for structural comparison of proteins
Liisa Holm1, Sakari Kääriäinen, Chris Wilton
1Institute of Biotechnology, University of Helsinki, Helsinki, Finland.
Current Protocols in Bioinformatics
|April 23, 2008
Summary
The Dali program offers automated protein structure comparisons using a unified algorithm. It provides web servers for database searches and interactive analysis, aiding structural biology research.
Area of Science:
- Structural Biology
- Bioinformatics
- Computational Biology
Background:
- Protein structure comparison is crucial for understanding function and evolution.
- Existing tools facilitate the analysis of macromolecular structures.
- The Protein Data Bank (PDB) is a primary repository for experimentally determined structures.
Purpose of the Study:
- To describe the Dali program and its associated resources for protein structure comparison.
- To highlight the different functionalities offered by the Dali server and DaliLite.
- To explain the Dali database as a structural classification resource.
Main Methods:
- Utilizes a consistent, identical algorithm for all structure comparison tasks.
- Employs database searching (Dali server) against the PDB.
- Offers interactive, pairwise structure comparison (DaliLite server).
Main Results:
- The Dali server identifies structural neighbors within the PDB for a given query structure.
- DaliLite provides interactive visualization of comparisons between two protein structures.
- The Dali database offers a hierarchical classification of protein structures based on similarity.
Conclusions:
- Dali provides a versatile suite of tools for automated protein structure analysis.
- The consistent algorithm across Dali resources ensures reliable and comparable results.
- Dali resources are accessible via the web or downloadable for local use, supporting diverse research needs.
More Related Videos
Related Concept Videos
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.
02:26Conservation 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...
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to form...