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SSEP-2.0: Secondary Structural Elements of Proteins
B Balamurugan1, K Samaya Mohan, J Ramesh
1Bioinformatics Centre, Indian Institute of Science, Bangalore 560 012, India.
Summary
The Secondary Structural Elements of Proteins (SSEP) database provides comprehensive protein secondary structure information. Version 2.0 enhances access to protein chain data and 3D structure visualization.
Area of Science:
- Biochemistry
- Structural Biology
- Bioinformatics
Background:
- Understanding protein secondary structures is crucial for comprehending protein function and interactions.
- Existing databases may lack comprehensive or easily accessible data on secondary structural elements.
Purpose of the Study:
- To present version 2.0 of the Secondary Structural Elements of Proteins (SSEP) database.
- To provide an integrated and comprehensive resource for protein secondary structural elements.
- To facilitate the visualization of these structures.
Main Methods:
- Curated data from non-redundant protein chain sets (25% and 90% identity).
- Development of web interfaces for data access.
- Integration with the RASMOL molecular visualization program for 3D structure viewing.
Main Results:
- The SSEP database version 2.0 includes 2485 (25% non-redundant) and 8595 (90% non-redundant) protein chains.
- Web interfaces allow users to visualize 3D structures of secondary structural elements.
- The database is updated regularly.
Conclusions:
- The updated SSEP database offers enhanced access to protein secondary structure information.
- It serves as a valuable resource for researchers in structural biology and bioinformatics.
- The integrated visualization tool aids in the study of protein architecture.