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MessagesChEMBL-curated data are now provided along with BindingDB data. Thanks to ChEMBL for making these data available. We would appreciate comments on this feature and its implementation.

BindingDB is a public, web-accessible database of measured binding affinities, focusing chiefly on the interactions of protein considered to be drug-targets with small, drug-like molecules.

Number of binding data: 544,641
Number of ITC data: 782
Number of protein targets: 3,056
Number of small molecules: 240,203

BindingDB Affinity Statistics

References

  1. Liu,T., Lin,Y., Wen,X., Jorrisen, R.N. and Gilson,M.K. BindingDB: a web-accessible database of experimentally determined protein-ligand binding affinities Nucleic Acids Research 35:D198-D201 (2007).    [pdf]
  2. Chen,X., Lin,Y. and Gilson,M.K. The Binding Database: Overview and User's Guide Biopolymers Nucleic Acid Sci. 61:127-141 (2002).
  3. Chen,X., Lin,Y., Liu,M. and Gilson,M.K. The Binding Database: Data Management and Interface Design Bioinformatics 18:130-139(2002).
  4. Chen,X., Liu,M., and Gilson,M.K. Binding DB: A web-accessible molecular recognition database J. Combi. Chem. High-Throughput Screen 4:719-725 (2001).
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BindingDB News

July, 2010. You can now download an SDfile with compounds and affinity data for an entire Article here: http://www.bindingdb.org/bind/ByPubMed.jsp.

May, 2010. The Target Name page now allows you to download all compounds and data for your Target of choice as an SDfile.

May, 2010. Move to faster server located at UCSD.

March, 2010. First incorporation of 462,466 ChEMBL data with defined molecular targets, including 207,522 new small molecules.

August, 2009. 1) New documentation available on Tutorial page.
2) Initial incorporation of PubChem datasets.

April, 2009. 1) Enhanced search results page.
2) Chemical structure search page improved with "AND" and "OR" options.
3) Molecular weight search page improved with "Ki" and "IC50" options.

February, 2009. BindingDB grant renewed.

May, 2008. Response times improved with new server and software tuning.

April, 2008. New Page with UniProtKB accession number search into BindingDB.

March, 2008. Links from ligands in PDB into BindingDB.

January 2008. Page of URLs with search links into BindingDB.

July, 2007. SDFile of all BindingDB compounds, with target and affinity data, made available for download. The SDfile format is documented here.