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A relational database for sequence-specific protein NMR data.
B R Seavey1, E A Farr, W M Westler
1Biochemistry Department, College of Agricultural and Life Sciences, University of Wisconsin-Madison 53706-1569.
Journal of Biomolecular NMR
|September 1, 1991
Summary
A new protein NMR database is being developed to store solution Nuclear Magnetic Resonance (NMR) data for proteins and peptides. This database will be searchable by various criteria, including experimental conditions and molecular species, aiding researchers in accessing vital structural information.
Area of Science:
- Biochemistry
- Structural Biology
- Bioinformatics
Background:
- Nuclear Magnetic Resonance (NMR) spectroscopy is crucial for determining protein and peptide structures.
- Existing data repositories may lack comprehensive or easily accessible solution NMR data.
- A centralized, structured database is needed to manage and disseminate this information.
Purpose of the Study:
- To design and implement a relational database for storing protein and peptide solution NMR data.
- To facilitate efficient data retrieval through comprehensive indexing.
- To provide a valuable resource for structural biology research.
Main Methods:
- A relational database model was selected for data organization.
- Data is indexed by journal citation, molecular species, sequence-specific assignments, and experimental parameters.
- Data is currently being curated from the primary peer-reviewed literature.
Main Results:
- A protein NMR database structure has been designed and is under implementation.
- The database will accommodate data for proteins and peptides exceeding 12 residues.
- Sample queries demonstrate the database's retrieval capabilities.
Conclusions:
- The developed protein NMR database will serve as a centralized repository for critical structural data.
- The chosen relational format and indexing strategy will enhance data accessibility and usability.
- Future distribution formats are being considered to maximize data sharing.