Abstract

The RCSB Protein Data Bank (RCSB PDB) web site (http://www.pdb.org) has been redesigned to increase usability and to cater to a larger and more diverse user base. This article describes key enhancements and new features that fall into the following categories: (i) query and analysis tools for chemical structure searching, query refinement, tabulation and export of query results; (ii) web site customization and new structure alerts; (iii) pair-wise and representative protein structure alignments; (iv) visualization of large assemblies; (v) integration of structural data with the open access literature and binding affinity data; and (vi) web services and web widgets to facilitate integration of PDB data and tools with other resources. These improvements enable a range of new possibilities to analyze and understand structure data. The next generation of the RCSB PDB web site, as described here, provides a rich resource for research and education.

Keywords

Protein Data Bank (RCSB PDB)Protein Data BankWorld Wide WebComputer scienceUsabilityDatabaseStructural bioinformaticsInformation retrievalWeb servicePersonalizationBiologyProtein structure

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The Protein Data Bank

Helen M. Berman

The Protein Data Bank (PDB; http://www.rcsb.org/pdb/ ) is the single worldwide archive of structural data of biological macromolecules. This paper describes the goals of the PDB...

2000 Nucleic Acids Research 38215 citations

Publication Info

Year
2010
Type
article
Volume
39
Issue
Database
Pages
D392-D401
Citations
656
Access
Closed

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Peter W. Rose, Bojan Beran, Bi Chen et al. (2010). The RCSB Protein Data Bank: redesigned web site and web services. Nucleic Acids Research , 39 (Database) , D392-D401. https://doi.org/10.1093/nar/gkq1021

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DOI
10.1093/nar/gkq1021