Abstract
Nowadays life sciences are filled with data gathered from many sources and these biological data are stored in many databases. Analysis of data gathered within these databases enables new view on the life from many aspects. This chapter describes several important structural bioinformatics databases which offer enormous possibilities for gathering analysis of available information about particular biomacromolecule, e.g., its 3D structure, sequence variations, annotation of function, intrinsic flexibility, ligand binding cavity identification, interactions with ligand, membrane localization, and much more. Important non-structural databases are enlisted as well to broaden the possibility of analysis. The chapter is also supplemented with several examples that illustrate the use and limitations of current structural bioinformatics databases.
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Notes
- 1.
For more complete list of structural databases please refer to http://www.oxfordjournals.org/our_journals/nar/database/subcat/4/14.
- 2.
Latest version of PDB format documentation can be found at http://www.wwpdb.org/documentation/file-format-content/format33/v3.3.html.
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Koča, J. et al. (2016). Structural Bioinformatics Databases of General Use. In: Structural Bioinformatics Tools for Drug Design. SpringerBriefs in Biochemistry and Molecular Biology. Springer, Cham. https://doi.org/10.1007/978-3-319-47388-8_3
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