Using the tools and resources of the RCSB protein data bank

Current Protocols in Bioinformatics
Shuchismita DuttaWolfgang F Bluhm

Abstract

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.

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Citations

Jan 14, 2012·PloS One·Anna MuszewskaMarcin Grynberg
Dec 19, 2015·Current Protocols in Bioinformatics·Jianyi Yang, Yang Zhang
Jun 23, 2015·Current Protocols in Bioinformatics·Andreas D Baxevanis, Alex Bateman
Sep 8, 2016·Current Protocols in Bioinformatics·Luigi Di CostanzoStephen K Burley
Mar 25, 2016·Current Protocols in Bioinformatics·David S Wishart
Jun 28, 2017·International Journal of Molecular Sciences·Qiu-Li HouYong-Qiang Zhang

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