Data Deposition and Annotation at the Worldwide Protein Data Bank

Shuchismita Dutta1, Kyle Burkhardt1, 2, Jasmine Young1, Ganesh J. Swaminathan3, Takanori Matsuura4, Kim Henrick3, Haruki Nakamura4 and Helen M. Berman1

1Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854-8087, USA
2Present address: Office of Research and Project Administration, Princeton University, 4 New South Building, Princeton, NJ 08544, USA
3The Macromolecular Structure Database at the European Bioinformatics Institute PDB-e, EMBL Outstation-Hinxton, Cambridge, CB10 1SD, UK
4Protein Data Bank Japan (PDBj), Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita Osaka, 565-0871, Japan

Molecular Biotechnology, 42(1), 1-13

The Protein Data Bank (PDB) is the repository for three-dimensional structures of biological macromolecules, determined by experimental methods. The data in the archive is free and easily available via the Internet from any of the worldwide centers managing this global archive. These data are used by scientists, researchers, bioinformatics specialists, educators, students, and general audiences to understand biological phenomenon at a molecular level. Analysis of this structural data also inspires and facilitates new discoveries in science. This chapter describes the tools and methods currently used for deposition, processing, and release of data in the PDB. References to future enhancements are also included.

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