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Access coronavirus binding data on our covid page here.

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. As of June 26, 2022, BindingDB contains 41,296 Entries, each with a DOI, containing 2,533,459 binding data for 8,811 protein targets and 1,085,985 small molecules.

There are 5,988 protein-ligand crystal structures with BindingDB affinity measurements for proteins with 100% sequence identity, and 11,442 crystal structures allowing proteins to 85% sequence identity.

You can also use BindingDB data through the Registry of Open Data on AWS: https://registry.opendata.aws/binding-db.

Simple Search
Article Titles, Authors, Assays, Compound Names, Target Names
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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. Recently added Targets
    1. PI3K/PI4K catalytic domain-containing protein, Cryptosporidium hominis, A0A0S4TH36 (Curated 05/24/22), : 15 subμM ligands
    2. Receptor protein-tyrosine kinase, Dog, A0A8C0LZB8 (Curated 05/08/22), CSF1R: 5 subμM ligands
    3. Phosphatidylinositol 4-kinase, Cryptosporidium parvum (strain Iowa II), Q5CVD3 (Curated 05/24/22), : 29 subμM ligands
  2. BindingDB has accelerated collection of COVID related data. You can find the result here.
  3. We are excited to share our new browser extension, BDBFind. Once installed in your browser, BDBFind automatically lets you know when BindingDB has the data from an article, PubMed Entry, or US Patent you are looking at online and provides direct links to view or download the data. Get BDBFind by searching for it in the Chrome webstore or in Firefox extensions or by following these links:

    Watch BDBFind in action in this 1.5 minute video:

    To send feedback about BDBfind, please email us at bindingdb@gmail.com.
Patent Curation
by BindingDB

BindingDB curates US Patents. We have scanned patents back to 2013 for suitable data and are currently up to date as of mid-2020. However, we cannot be sure of capturing all relevant patents, so if you know of a useful one we have missed, please let us know and we will try to curate it. As of June 26, 2022, BindingDB's patent dataset comprises:

  1. Patents: 5,759
  2. Binding measurements: 884,579
  3. Compounds: 426,376
  4. Target proteins: 2,291
  5. Assays: 8,328
  6. Average Number of Targets per Patent: 1.92
Journal Curation
by BindingDB		 BindingDB continually curates a set of journals not covered by other public databases. As of June 26, 2022, 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 2005-2017 (vol 1-13) magnifying glass
  12. Medicinal Chemistry Research 2004-2014 (vol 13-23) magnifying glass
  1. PubMed IDs: 3,467
  2. Binding measurements: 112,812
  3. Compounds: 47,154
  4. Target proteins: 2,996
  5. Assays: 3,268
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Video Tutorials
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