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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. BindingDB contains 1,391,403 binding data, for 7,217 protein targets and 621,056 small molecules.

There are 2291 protein-ligand crystal structures with BindingDB affinity measurements for proteins with 100% sequence identity, and 5816 crystal structures allowing proteins to 85% sequence identity.

Simple Search
Article Titles, Authors, Assays, Compound Names, Target Names

Use ? for single-letter wild-card or * for general wild-card.
For example, "adeny*" or "adeny?". Query cannot start with wild card.
Advanced Search Combine multiple search criteria, such as chemical structures, target names, and numerical affinities; restrict searches by data source, such as BindingDB, ChEMBL, PubChem, and Patents.
Messages
  1. The Advanced Search page has been simplified and made more unified with other BindingDB pages. (September 2017)
  2. As of September 4, 2017, links to BindingDB from Elsevier journals are not all working. Elsevier is moving to a new platform, and thinks this is the reason. They anticipate that all links will resume working by the end of September. (September 2017)
Patent Curation
by BindingDB

BindingDB curates US Patents with protein-small molecule binding data. As of September 2017, BindingDB's patent dataset comprises:

  1. Patents: 1,801
  2. Binding measurements: 189,117
  3. Compounds: 125,356
  4. Target proteins: 1,188
  5. Assays: 2,539
Journal Curation
by BindingDB
BindingDB continually curates a set of journals not covered by other public databases. As of September 2017, the status of our current curation effort is as follows:
  1. ACS Chemical Biology 2006-2017 (vol 1-12) magnifying glass
  2. ACS BioChemistry 1965-2017 (vol 4-56) magnifying glass
  3. Bioorganic Chemistry 1990-2017 (vol 18-73) magnifying glass
  4. BMC Chemical Biology 2001-2010 (vol 1-10) magnifying glass
  5. ChemBioChem 2001-2017 (vol 2-18) magnifying glass
  6. Chemical Biology & Drug Design 2006-2017 (vol 67-89) magnifying glass
  7. Chemistry & Biology 1995-2015 (vol 2-22) magnifying glass
  8. Journal of Biological Chemistry 1982-2014 (vol 257-289) magnifying glass
  9. Journal of Chemical Biology 2010-2010 (vol 3-3) magnifying glass
  10. Journal of Enzyme Inhibition and Medicinal Chemistry 2002-2014 (vol 17-29) magnifying glass
  11. Nature Chemical Biology 2006-2017 (vol 1-13) magnifying glass
  12. Medicinal Chemistry Research 2004-2013 (vol 13-22) magnifying glass
  1. PubMed IDs: 3,374
  2. Binding measurements: 109,398
  3. Compounds: 45,255
  4. Target proteins: 3,128
  5. Assays: 4,881
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BindingDB News

June 2017. We are pleased to report that the NIH has renewed its support for BindingDB. Thanks to all who filled out our survey and provided supporting messages!

June 2017. Drug Design Data Resource (D3R) datasets have been integrated into BindingDB and are also available here: https://www.bindingdb.org/bind/ByD3R.jsp