BioMagResBank (BMRB) is the unique worldwide resource that provides free access to the wealth of information on biomolecules derived from nuclear magnetic resonance (NMR) spectroscopy. These NMR experimental data underlie the three-dimensional structures of many proteins and nucleic acids and provide important insights into their dynamics, chemical properties, and molecular interactions. BMRB maintains an open architecture and a defined and flexible data model that makes it possible to respond rapidly to changes in standards for data exchange and to the steady advances in NMR technology (greater variety of archived data and increasingly detailed associated metadata). Data archived at BMRB include primary data sets and derived results, such as chemical shifts, couplings, and cross relaxations associated with three-dimensional structures, parameters that specify local dynamics, pKa values assigned to specific sites, H-exchange rates, and evidence for conformational heterogeneity and molecular interactions. BMRB integrates these NMR data into a unified, global, macromolecular structure database of general utility to the broad scientific community. The growing volume and diversity of data available from BMRB are catalyzing transformative scientific applications, such as the determination of protein structure and dynamics directly from chemical shifts. BMRB and its collaborators develop improved software tools for integrating the retrieval, analysis, and display of NMR data in the context of molecular structure and conformation. As a member of the World Wide Protein Data Bank (wwPDB), BMRB has close ties with the three other wwPDB partners: the Research Collaboratory for Structural Bioinformatics (RCSB), the European Bioinformatics Institute (EBI), and the Protein Data Bank of Japan (PDBj). The ADIT-NMR deposition system developed by BMRB in collaboration with the RCSB is responsible for acquiring over 95% of the new content brought into the archive in the past year. BMRB collaborates with developers of software tools for extracting information from NMR spectral data and for validating this information. The funds requested will enable BMRB (1) to verify, reformat, archive, and distribute new data submitted electronically, (2) to maintain a productive dialogue with users and creators of biomolecular NMR data, (3) to maintain and strengthen BMRB's role in the wwPDB, (4) to collaborate with databanks specializing in related information so that useful links are created, and (5) to interact with developers of new software and algorithms that make use of biomolecular NMR data.

Public Health Relevance

The BioMagResBank data repository supports the biomedical research efforts of the world wide biological macromolecular magnetic resonance (MR) community. Magnetic resonance spectroscopy is a key tool used to understand the medical significance of protein and nucleic acid structure and to identify potential drug therapeutics.

Agency
National Institute of Health (NIH)
Institute
National Library of Medicine (NLM)
Type
Biotechnology Resource Grants (P41)
Project #
5P41LM005799-17
Application #
8322733
Study Section
Special Emphasis Panel (ZLM1-AP-M (J2))
Program Officer
Ye, Jane
Project Start
1996-09-01
Project End
2014-09-14
Budget Start
2012-09-15
Budget End
2013-09-14
Support Year
17
Fiscal Year
2012
Total Cost
$734,108
Indirect Cost
$239,759
Name
University of Wisconsin Madison
Department
Biochemistry
Type
Schools of Earth Sciences/Natur
DUNS #
161202122
City
Madison
State
WI
Country
United States
Zip Code
53715
Tonelli, Marco; Eller, Chelcie H; Singarapu, Kiran K et al. (2015) Assignments of RNase A by ADAPT-NMR and enhancer. Biomol NMR Assign 9:81-8
Berman, Helen M; Kleywegt, Gerard J; Nakamura, Haruki et al. (2014) The Protein Data Bank archive as an open data resource. J Comput Aided Mol Des 28:1009-14
Berman, Helen M; Burley, Stephen K; Kleywegt, Gerard J et al. (2014) Response to On prompt update of literature references in the Protein Data Bank. Acta Crystallogr D Biol Crystallogr 70:2780
Berman, Helen M; Kleywegt, Gerard J; Nakamura, Haruki et al. (2013) How community has shaped the Protein Data Bank. Structure 21:1485-91
Ellinger, James J; Chylla, Roger A; Ulrich, Eldon L et al. (2013) Databases and Software for NMR-Based Metabolomics. Curr Metabolomics 1:
Montelione, Gaetano T; Nilges, Michael; Bax, Ad et al. (2013) Recommendations of the wwPDB NMR Validation Task Force. Structure 21:1563-70
Doreleijers, Jurgen F; Vranken, Wim F; Schulte, Christopher et al. (2012) NRG-CING: integrated validation reports of remediated experimental biomolecular NMR data and coordinates in wwPDB. Nucleic Acids Res 40:D519-24
Penkett, Christopher J; van Ginkel, Glen; Velankar, Sameer et al. (2010) Straightforward and complete deposition of NMR data to the PDBe. J Biomol NMR 48:85-92
Doreleijers, Jurgen F; Vranken, Wim F; Schulte, Christopher et al. (2009) The NMR restraints grid at BMRB for 5,266 protein and nucleic acid PDB entries. J Biomol NMR 45:389-96
Dutta, Shuchismita; Burkhardt, Kyle; Young, Jasmine et al. (2009) Data deposition and annotation at the worldwide protein data bank. Mol Biotechnol 42:1-13

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