PDBWiki

PDBWiki is a wiki that functions as a user-contributed database of protein structure annotations, listing all the protein structures currently available in the Protein Data Bank (PDB). It runs on the MediaWiki wiki application. ^{[1] [2]}

Currently PDBWiki contains details of more than 50,000 protein structures and over 50 'user-contributed' annotations, making it a significant resource for the structural biology community.^{[citation needed]}

Motivation

The Protein Data Bank (PDB) is the central archive of experimentally solved biomolecular structures. However, the PDB only allows data retrieval and does not provide functionality for collaboration or user feedback. In contrast, PDBWiki allows for sharing expert knowledge about structures deposited in the PDB. It provides tools for discussing and annotating proteins in a collaborative way. The goal is to create a central and freely-accessible repository of user-contributed information that will be useful for anyone working with PDB structures. As such PDBWiki can be considered a part of a wider effort in community-based biological databases curation. ^[3][4]

About

PDBWiki was developed as part of the BioWiki initiative, and was entered into the third International Openfree Bioinformation Contents Competition organised by BiO.CC, a biological information website operated by KOBIC.

References

1. ^ Stehr, H.; Duarte, J.M.; Lappe, M.; Bhak, J.; Bolser, D.M. (2010-03-20), "PDBWiki: added value through community annotation of the Protein Data Bank", Database the Journal of Biological Databases and Curation 2010 (0): baq009–baq009, doi:10.1093/database/baq009, PMC 2911844, PMID 20624717, http://database.oxfordjournals.org/content/2010/baq009.full 
2. ^ "PDBWiki press release" (in German). Max Planck Institute for Molecular Genetics. 2007-10-05. http://www.molgen.mpg.de/news/news-molgen-mpg-de-05.10.2007.html. 
3. ^ Hu, James C.; Aramayo, R; Bolser, DM; Conway, T; Elsik, CG; Gribskov, M; Kelder, T; Kihara, D et al. (2008-06-06), "The Emerging World of Wikis", Science 320 (5881): 1289–90, doi:10.1126/science.320.5881.1289b, PMID 18535227, http://www.sciencemag.org/cgi/content/full/320/5881/1289b 
4. ^ Stehr, H.; Duarte, J.M.; Lappe, M.; Bhak, J.; Bolser, D.M. (2009-04-22), "PDBWiki", Nature Precedings (Berlin, Germany), doi:10.1038/npre.2009.3123.1, http://precedings.nature.com/documents/3123/version/1 

See also

• Proteopedia
• The Molecular and Cellular Biology 'WikiProject'.

External links

• The PDBWiki homepage
• About PDBWiki
• The Worldwide Protein Data Bank

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