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Active Sequences Collection (ASC) database: a new tool to assign functions to protein sequences
Angelo M Facchiano1, Antonio Facchiano, Francesco Facchiano
1Istituto di Scienze dell'Alimentazione, CNR-via Roma 52A/C 83100 Avellino, Italy. angelo.facchiano@isa.av.cnr.it
Nucleic Acids Research
|January 10, 2003
Summary
The Active Sequences Collection (ASC) is a database of short, biologically active amino acid sequences. It aids in studying protein active sites and functional patterns.
Area of Science:
- Biochemistry
- Molecular Biology
- Bioinformatics
Background:
- Biological activity is often associated with short amino acid sequences.
- Existing databases may not specifically focus on curated, short, active sequences.
- Understanding active sites and functional patterns requires specialized data resources.
Purpose of the Study:
- To introduce the Active Sequences Collection (ASC) database.
- To provide a specialized resource for short, biologically active amino acid sequences.
- To offer a tool for investigating protein active site structural features.
Main Methods:
- Compilation of active amino acid sequences into distinct sections: DORRS (RGD-containing peptides), TRANSIT (transglutaminase substrates), and BAC (short active peptides).
- Inclusion of literature references and cross-references to other databases for each entry.
- Development of a web interface for database access, sequence comparison, and user contributions.
Main Results:
- The current ASC version contains over 800 entries.
- ASC provides a unique collection focusing on short, active sequences.
- The database includes detailed annotations and cross-references.
Conclusions:
- ASC serves as a valuable tool for researchers studying protein active sites and functional patterns.
- The database facilitates novel investigations beyond traditional similarity searches.
- ASC is accessible online and supports community contributions for ongoing updates.