Database and structural characterization of intermolecular interactions in nucleic acid and protein complex

• Published in: Nucleic acids symposium series (2004) no. 48; p. 127
• Main Author: Fujii, Satoshi
• Format: Journal Article
• Language: English
• Published: England 2004
• Subjects: Databases, Nucleic Acid; Databases, Protein; Nucleic Acids - chemistry; Protein Binding; Proteins - chemistry
• ISSN: 1746-8272; 1746-8272
• DOI: 10.1093/nass/48.1.127

Protein-nucleic acid interactions and manners in which they control cellular communication are interesting subjects. Structural interaction data based on three-dimensional structure provide the valuable information for understanding these interactions. The database cataloging the interaction motifs of nucleic acid moieties has been developed. DNA/RNA molecules with the specific three-dimensional structure, express the specific structural and biological functions. The polymorphic nature of recognition interactions and/or motifs in protein-nucleic acid complex are generated from a variety of week forces, such as hydrogen bonds and hydrophobic interactions. The geometrical parameters about hydrogen bond and base stacking would provide the tolerant aspect for these characterizations. The tentative database including these geometrical parameters with the species and physical properties of the surrounding amino acids has been constructed. The user can obtain the selected list with several descriptors for the structure definition and sequence properties.