EM Data Bank
 | |
|---|---|
| Content | |
| Description | Unified Data Resource for CryoEM. |
| Contact | |
| Research center | European Bioinformatics Institute (UK site) AND Rutgers University (USA site) |
| Laboratory | PDBe & RCSB PDB |
| Primary citation | Lawson & al. (2011)[1] |
| Release date | 2002 |
| Access | |
| Website | http://emdatabank.org |
| Tools | |
| Miscellaneous | |
The EM Data Bank or Electron Microscopy Data Bank (EMDB) collects 3D EM maps and associated experimental data determined using electron microscopy of biological specimens. It was established in 2002 at the MSD/PDBe group of the European Bioinformatics Institute (EBI), where the European site of the EMDataBank.org consortium is located.
It provides both the
Under the NIH Unified Data Resource for CryoEM, the Research Collaboration for Structural Biology (RCSB) also acts as a deposition, data processing and distribution center for EMDB data, while the National Center for Macromolecular Imaging (NCMI) is a collaborative partner in providing services and tools concerning the EMDB.
EMDB is an archive for three-dimensional density maps of all types of biological assemblies, including ribosomes, chaperones, polymerases, multifunctional enzymes and viruses. Viper EMDB at Scripps is a separate database for three-dimensional EM maps of viruses.
See also
- Cryo-Electron Microscopy
- Colocalization Benchmark Source
References
- ↑ Lawson, Catherine L; Baker Matthew L, Best Christoph, Bi Chunxiao, Dougherty Matthew, Feng Powei, van Ginkel Glen, Devkota Batsal, Lagerstedt Ingvar, Ludtke Steven J, Newman Richard H, Oldfield Tom J, Rees Ian, Sahni Gaurav, Sala Raul, Velankar Sameer, Warren Joe, Westbrook John D, Henrick Kim, Kleywegt Gerard J, Berman Helen M, Chiu Wah (Jan 2011). "EMDataBank.org: unified data resource for CryoEM". Nucleic Acids Res. (England) 39 (Database issue): D456–64. doi:10.1093/nar/gkq880. PMC 3013769. PMID 20935055.
- M. Tagari, et al. (2002). "New electron microscopy database and deposition system”. Trends Biochem Sci, 27 (11): p. 589. PMID 12417136
- S. D. Fuller (2003). “Depositing electron microscopy maps”. Structure, 11 (1): pp. 11–12. PMID 12517335
- K. Henrick, R. Newman, M. Tagari, and M. Chagoyen (2003). “EMDep: a web-based system for the deposition and validation of high-resolution electron microscopy macromolecular structural information”. J Struct Biol, 144 (1-2): pp. 228–237. PMID 14643225
- J. B. Heymann, M. Chagoyen, and D. M. Belnap (2005). “Common conventions for interchange and archiving of three-dimensional electron microscopy information in structural biology”. J Struct Biol, 151 (2): pp. 196–207. PMID 16043364
- M. Tagari, et al. (2006). “E-MSD: improving data deposition and structure quality”. Nucleic Acids Res, 34 (Database issue): pp. 287–290. PMID 16381867
- C. Lawson, et al. “EMDataBank.org: unified data resource for CryoEM”. Nucleic Acids Res. 2011 Database issue. PMID 20935055
External links
- Software tools for molecular microscopy
- EM Data Bank
- US and UK Search pages
- Japan Search page (EM Navigator in PDBj)