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Updated: Jul 18, 2026
16:24
Analyzing and Building Nucleic Acid Structures with 3DNA
Published on: April 26, 2013
Database and structural characterization of intermolecular interactions in nucleic acid and protein complex
1School of Pharmaceutical Sciences, University of Shizuoka, 52-1 Yada, Shizuoka, Shizuoka 422-8526, Japan.
Nucleic Acids Symposium Series (2004)
|December 8, 2006
Summary
This study introduces a database of protein-nucleic acid interactions, detailing structural motifs and geometrical parameters. This resource aids in understanding cellular communication driven by these crucial molecular interactions.
Area of Science:
- Structural biology
- Molecular biology
- Bioinformatics
Background:
- Protein-nucleic acid interactions are fundamental to cellular communication.
- Understanding these interactions requires detailed structural information.
- Existing data on interaction motifs and their underlying forces is fragmented.
Purpose of the Study:
- To develop a comprehensive database of protein-nucleic acid interaction motifs.
- To catalog geometrical parameters, including hydrogen bonds and base stacking.
- To provide a resource for analyzing the structural and functional aspects of these complexes.
Main Methods:
- Development of a database to catalog nucleic acid interaction motifs.
- Inclusion of geometrical parameters (hydrogen bonds, base stacking).
- Incorporation of amino acid properties and species information.
Main Results:
- A tentative database has been constructed containing geometrical parameters.
- The database includes species and physical properties of surrounding amino acids.
- Users can retrieve specific interaction data based on structural and sequence descriptors.
Conclusions:
- The developed database offers valuable insights into protein-nucleic acid interactions.
- Structural data and geometrical parameters are key to understanding function.
- This resource facilitates research into cellular communication mechanisms.
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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.
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01:13Protein Organization
Overview
01:13Protein Organization
Overview
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.