UNIT 1.9 Using the Tools and Resources of the RCSB Protein Data Bank
Published Online: 1 DEC 2007
Copyright © 2007 by John Wiley and Sons, Inc.
Lab Protocol Title
Current Protocols in Bioinformatics
How to Cite
Dutta, S., M. Berman, H. and F. Bluhm, W. 2007. Using the Tools and Resources of the RCSB Protein Data Bank. Current Protocols in Bioinformatics. 20:1.9.1–1.9.24.
- Published Online: 1 DEC 2007
- Published Print: DEC 2007
The Protein Data Bank (PDB; http://www.pdb.org) is the world-wide repository for three-dimensional structural data determined using various experimental methods. The options and procedures for searching and downloading structural data from the Research Collaboratory for Structural Bioinformatics (RCSB) PDB are described here, along with tools for assessing the quality of structures. Several types of information are associated with each structure deposition, including atomic coordinates of the structure, experimental data used to solve it, sequences of all macromolecules in the structures, details about the structure solution method, images showing different views of the structure, derived geometric data, and a variety of links to other resources. These data and resources may be used for understanding the function and stability of the molecule and for designing biochemical, genetic, or other experiments. They can also be used for molecular modeling and drug design. Curr. Protoc. Bioinform. 20:1.9.1-1.9.24. © 2007 by John Wiley & Sons, Inc.
- macromolecular structures;
- nucleic acids