BindingDB logo
myBDB logout

Please try our new beta-test BindingDB site!

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 May 4, 2022, BindingDB contains 41,296 Entries, each with a DOI, containing 2,513,948 binding data for 8,839 protein targets and 1,077,922 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

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. Recently added Targets
    1. glucose-dependent insulinotropic receptor, Golden hamster, A0A1U8CD06 (Curated 03/28/22), Gpr119: 1 subμM ligands
    2. G protein-coupled receptor 34a, Zebrafish, B3DHD6 (Curated 03/28/22), gpr34a: 2 subμM ligands
    3. Histone-lysine N-methyltransferase EZH2, Rat, B5DFE2 (Curated 03/29/22), Ezh2: 1 subμM ligands
    4. Hemagglutinin, Influenza A virus (A/reassortant/NIBRG-121(California/07/2009 x PR8)(H1N1)), C5MVR7 (Curated 03/30/22), HA: 3 subμM ligands
    5. G-protein coupled receptor 183, Rat, D4A7K7 (Curated 03/27/22), Gpr183: 3 subμM ligands
    6. Polyamine deacetylase HDAC10, Zebrafish, F1QCV2 (Curated 03/29/22), hdac10: 1 subμM ligands
    7. Dynamin-1-like protein, Human, O00429 (Curated 03/27/22), DNM1L: 2 subμM ligands
    8. Syntenin-1, Human, O00560 (Curated 03/26/22), SDCBP: 7 subμM ligands
    9. Growth hormone secretagogue receptor type 1, Rat, O08725 (Curated 03/24/22), Ghsr: 3 subμM ligands
    10. Long-chain-fatty-acid--AMP ligase FadD32, Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv), O53580 (Curated 03/29/22), fadD32: 1 subμM ligands
    11. Formyl peptide receptor 2, Mouse, O88536 (Curated 03/28/22), Fpr2: 5 subμM ligands
    12. Atypical chemokine receptor 3, Rat, O89039 (Curated 03/26/22), Ackr3: 1 subμM ligands
    13. Carbamate kinase, Giardia intestinalis, O97438 (Curated 03/30/22), CBK: 1 subμM ligands
    14. Atypical chemokine receptor 3, Dog, P11613 (Curated 03/26/22), ACKR3: 1 subμM ligands
    15. Cyclic AMP-dependent transcription factor ATF-4, Human, P18848 (Curated 03/27/22), ATF4: 53 subμM ligands
    16. B-cell lymphoma 6 protein, Human, P41182 (Curated 09/20/19), BCL6: 56 subμM ligands
    17. DNA repair protein RAD52 homolog, Human, P43351 (Curated 03/30/22), RAD52: 1 subμM ligands
    18. Protein farnesyltransferase subunit beta, Human, P49356 (Curated 12/14/14), FNTB: 1373 subμM ligands
    19. Signal transducer and activator of transcription 2, Human, P52630 (Curated 03/26/22), STAT2: 1 subμM ligands
    20. Ectonucleoside triphosphate diphosphohydrolase 1, Mouse, P55772 (Curated 03/24/22), Entpd1: 1 subμM ligands
    21. Long-chain-fatty-acid--AMP ligase FadD28, Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv), P9WQ59 (Curated 03/29/22), fadD28: 5 subμM ligands
    22. Forkhead box protein M1, Human, Q08050 (Curated 03/28/22), FOXM1: 2 subμM ligands
    23. Adenylate cyclase type 2, Human, Q08462 (Curated 11/10/09), ADCY2: 29 subμM ligands
    24. DNA-binding protein Ikaros, Human, Q13422 (Curated 04/09/22), IKZF1: 4 subμM ligands
    25. Na(+)/H(+) exchange regulatory cofactor NHE-RF2, Human, Q15599 (Curated 03/26/22), SLC9A3R2: 1 subμM ligands
    26. RISC-loading complex subunit TARBP2, Human, Q15633 (Curated 03/24/22), TARBP2: 1 subμM ligands
    27. 2-hydroxyacylsphingosine 1-beta-galactosyltransferase, Human, Q16880 (Curated 03/28/22), UGT8: 21 subμM ligands
    28. G protein-coupled receptor 34b, Zebrafish, Q568G5 (Curated 03/28/22), gpr34b: 2 subμM ligands
    29. Potassium channel subfamily T member 1, Human, Q5JUK3 (Curated 03/26/22), KCNT1: 16 subμM ligands
    30. N-terminal Xaa-Pro-Lys N-methyltransferase 2, Human, Q5VVY1 (Curated 03/28/22), NTMT2: 1 subμM ligands
    31. 2-hydroxyacylsphingosine 1-beta-galactosyltransferase, Mouse, Q64676 (Curated 03/28/22), Ugt8: 1 subμM ligands
    32. N-acyl-phosphatidylethanolamine-hydrolyzing phospholipase D, Human, Q6IQ20 (Curated 03/26/22), NAPEPLD: 36 subμM ligands
    33. RNA demethylase ALKBH5, Human, Q6P6C2 (Curated 03/26/22), ALKBH5: 1 subμM ligands
    34. Relaxin receptor 1, Rat, Q6R6I6 (Curated 03/29/22), Rxfp1: 3 subμM ligands
    35. Potassium channel subfamily T member 1, Mouse, Q6ZPR4 (Curated 03/26/22), Kcnt1: 1 subμM ligands
    36. N-acyl-phosphatidylethanolamine-hydrolyzing phospholipase D, Mouse, Q8BH82 (Curated 03/26/22), Napepld: 4 subμM ligands
    37. Anoctamin-1, Mouse, Q8BHY3 (Curated 03/26/22), Ano1: 2 subμM ligands
    38. Kinesin-like protein KIF18A, Human, Q8NI77 (Curated 03/28/22), KIF18A: 18 subμM ligands
    39. Nuclear receptor subfamily 4 group A member 3, Human, Q92570 (Curated 03/27/22), NR4A3: 2 subμM ligands
    40. Methionine--tRNA ligase, mitochondrial, Human, Q96GW9 (Curated 03/25/22), MARS2: 10 subμM ligands
    41. Neuropeptide FF receptor 1, Rat, Q9EP86 (Curated 03/29/22), Npffr1: 5 subμM ligands
    42. UDP-N-acetylglucosamine--dolichyl-phosphate N-acetylglucosaminephosphotransferase, Human, Q9H3H5 (Curated 03/25/22), DPAGT1: 3 subμM ligands
    43. Golgi-associated PDZ and coiled-coil motif-containing protein, Human, Q9HD26 (Curated 03/26/22), GOPC: 14 subμM ligands
    44. Short transient receptor potential channel 3, Mouse, Q9QZC1 (Curated 03/26/22), Trpc3: 1 subμM ligands
    45. Potassium channel subfamily T member 1, Rat, Q9Z258 (Curated 03/26/22), Kcnt1: 1 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 May 4, 2022, BindingDB's patent dataset comprises:

  1. Patents: 5,660
  2. Binding measurements: 866,553
  3. Compounds: 418,929
  4. Target proteins: 2,293
  5. Assays: 8,204
  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 May 4, 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: 3,466
  2. Binding measurements: 112,773
  3. Compounds: 47,122
  4. Target proteins: 2,999
  5. Assays: 3,266
myBDB
Username Password
logout Username is your registered email in BindingDB.register
Video Tutorials
  1. Get all data from an article
  2. Download all data for a target of interest
  3. Find and view all data for a target of interest
  4. Find my compound's targets