BindingDB

The first public molecular recognition database, BindingDB supports research, education and practice in drug discovery, pharmacology and related fields.

BindingDB contains 2.9M data for 1.2M Compounds and 9.3K Targets. Of those, 1,352K data for 627K Compounds and 4.5K Targets were curated by BindingDB curators. BindingDB is a FAIRsharing resource.

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Recently Added Targets

    1. Dihydroorotate dehydrogenase (quinone), mitochondrial, Plasmodium falciparum (isolate Dd2), A0A0L7M6L3 (Curated 04/23/24), : 5 subμM ligands
    2. Dihydroorotate dehydrogenase (quinone), mitochondrial, malaria parasite P. vivax, A0A1G4H0K4 (Curated 04/23/24), : 13 subμM ligands
    3. Decaprenyl-phosphate N-acetylglucosaminephosphotransferase, Mycobacterium smegmatis, A0R211 (Curated 04/22/24), wecA: 1 subμM ligands
    4. L,D-transpeptidase 2, Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv), I6Y9J2 (Curated 04/19/24), ldtB: 1 subμM ligands
    5. Serine/threonine-protein phosphatase 6 catalytic subunit, Human, O00743 (Curated 04/19/24), PPP6C: 3 subμM ligands
    6. Trypanothione synthetase, Crithidia fasciculata, O60993 (Curated 04/23/24), TRS: 1 subμM ligands
    7. Sphingomyelin phosphodiesterase 2, Mouse, O70572 (Curated 04/18/24), Smpd2: 2 subμM ligands
    8. Monocarboxylate transporter 3, Human, O95907 (Curated 04/19/24), SLC16A8: 1 subμM ligands
    9. Alpha-1-antichymotrypsin, Human, P01011 (Curated 04/22/24), SERPINA3: 1 subμM ligands
    10. Angiotensinogen, Human, P01019 (Curated 04/23/24), AGT: 4 subμM ligands
    11. Matrix protein 2, Influenza A virus (strain A/Puerto Rico/8/1934 H1N1), P06821 (Curated 04/22/24), M: 4 subμM ligands
    12. Corticoliberin, Human, P06850 (Curated 04/21/24), CRH: 1 subμM ligands
    13. tRNA (guanine-N(1)-)-methyltransferase, Escherichia coli (strain K12), P0A873 (Curated 04/22/24), trmD: 19 subμM ligands
    14. 23S rRNA methylase leader peptide, Escherichia coli, P10739 (Curated 04/22/24), ermC: 1 subμM ligands
    15. Myosin-1, Human, P12882 (Curated 03/04/24), MYH1: 6 subμM ligands
    16. Cytotoxic T-lymphocyte protein 4, Human, P16410 (Curated 04/22/24), CTLA4: 1 subμM ligands
    17. Proline--tRNA ligase, Escherichia coli (strain K12), P16659 (Curated 04/22/24), proS: 2 subμM ligands
    18. CTP synthase 1, Human, P17812 (Curated 04/20/24), CTPS1: 13 subμM ligands
    19. Sulfotransferase 1A1, Rat, P17988 (Curated 04/21/24), Sult1a1: 4 subμM ligands
    20. Thyrotropin receptor, Rat, P21463 (Curated 04/22/24), Tshr: 23 subμM ligands
    21. NAD-dependent malic enzyme, mitochondrial, Human, P23368 (Curated 04/18/24), ME2: 15 subμM ligands
    22. Ceramide synthase 1, Human, P27544 (Curated 04/18/24), CERS1: 1 subμM ligands
    23. Ceramide synthase 1, Mouse, P27545 (Curated 04/18/24), Cers1: 1 subμM ligands
    24. Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial, Pig, P29804 (Curated 04/22/24), PDHA1: 3 subμM ligands
    25. Genome polyprotein, DENV-2, P29991 (Curated 04/04/24), : 7 subμM ligands
    26. Stefin-3, Mouse, P35173 (Curated 04/18/24), Stfa3: 5 subμM ligands
    27. Polycomb complex protein BMI-1, Human, P35226 (Curated 04/23/24), BMI1: 25 subμM ligands
    28. Albumin, Rabbit, P49065 (Curated 04/21/24), ALB: 2 subμM ligands
    29. Estrogen receptor, Bovine, P49884 (Curated 04/21/24), ESR1: 2 subμM ligands
    30. Monocarboxylate transporter 4, Mouse, P57787 (Curated 04/21/24), Slc16a3: 1 subμM ligands
    31. Transforming growth factor beta-2 proprotein, Human, P61812 (Curated 04/23/24), TGFB2: 4 subμM ligands
    32. CTP synthase 2, Mouse, P70303 (Curated 04/20/24), Ctps2: 3 subμM ligands
    33. CTP synthase 1, Mouse, P70698 (Curated 04/20/24), Ctps1: 4 subμM ligands
    34. E3 ubiquitin-protein ligase RNF4, Human, P78317 (Curated 04/18/24), RNF4: 1 subμM ligands
    35. O-phosphoserine sulfhydrylase, Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv), P9WP53 (Curated 04/23/24), cysM: 1 subμM ligands
    36. L-lactate dehydrogenase, malaria parasite P. falciparum, Q0PJ46 (Curated 04/20/24), LDH: 2 subμM ligands
    37. Interleukin-18, Human, Q14116 (Curated 04/19/24), IL18: 1 subμM ligands
    38. Peroxisomal acyl-coenzyme A oxidase 1, Human, Q15067 (Curated 04/22/24), ACOX1: 1 subμM ligands
    39. Mothers against decapentaplegic homolog 2, Human, Q15796 (Curated 04/22/24), SMAD2: 3 subμM ligands
    40. Diacylglycerol kinase delta, Human, Q16760 (Curated 04/12/24), DGKD: 119 subμM ligands
    41. NADP-dependent malic enzyme, mitochondrial, Human, Q16798 (Curated 04/18/24), ME3: 28 subμM ligands
    42. Lymphocyte antigen 6K, Human, Q17RY6 (Curated 04/18/24), LY6K: 1 subμM ligands
    43. Isopentenyl-diphosphate Delta-isomerase, Escherichia coli (strain K12), Q46822 (Curated 04/18/24), idi: 2 subμM ligands
    44. Somatostatin receptor type 2, Dog, Q49LX6 (Curated 04/18/24), SSTR2: 1 subμM ligands
    45. Hydroxysteroid 11-beta dehydrogenase 1, Rhesus macaque, Q56D22 (Curated 04/21/24), HSD11B1: 1 subμM ligands
    46. CTP synthase 2, Rat, Q5U2N0 (Curated 04/20/24), Ctps2: 4 subμM ligands
    47. Sphingolipid delta(4)-desaturase DES1, Rat, Q5XIF5 (Curated 04/18/24), Degs1: 1 subμM ligands
    48. Metabotropic glutamate receptor 7, Mouse, Q68ED2 (Curated 04/22/24), Grm7: 1 subμM ligands
    49. Proprotein convertase subtilisin/kexin type 9, Mouse, Q80W65 (Curated 04/20/24), Pcsk9: 2 subμM ligands
    50. Mannan-binding lectin serine protease 1, Rat, Q8CHN8 (Curated 03/04/24), Masp1: 21 subμM ligands
    51. Ribonuclease SLFN12, Human, Q8IYM2 (Curated 04/22/24), SLFN12: 1 subμM ligands
    52. NADPH oxidase organizer 1, Human, Q8NFA2 (Curated 04/22/24), NOXO1: 1 subμM ligands
    53. Delta and Notch-like epidermal growth factor-related receptor, Human, Q8NFT8 (Curated 04/18/24), DNER: 1 subμM ligands
    54. Fibroblast growth factor receptor substrate 2, Human, Q8WU20 (Curated 04/21/24), FRS2: 1 subμM ligands
    55. Kinesin-like protein KIF18A, Mouse, Q91WD7 (Curated 04/18/24), Kif18a: 1 subμM ligands
    56. Homeobox-leucine zipper protein PROTODERMAL FACTOR 2, Mouse-ear cress, Q93V99 (Curated 04/23/24), PDF2: 1 subμM ligands
    57. L-amino-acid oxidase, Human, Q96RQ9 (Curated 04/21/24), IL4I1: 14 subμM ligands
    58. AMP deaminase 2, Mouse, Q9DBT5 (Curated 04/20/24), Ampd2: 2 subμM ligands
    59. P2Y purinoceptor 6, Mouse, Q9ERK9 (Curated 04/19/24), P2ry6: 1 subμM ligands
    60. Cytochrome P450 4F11, Human, Q9HBI6 (Curated 04/20/24), CYP4F11: 2 subμM ligands
    61. Mannan-binding lectin serine protease 2, Rat, Q9JJS8 (Curated 03/04/24), Masp2: 20 subμM ligands
    62. Muscleblind-like protein 1, Human, Q9NR56 (Curated 04/18/24), MBNL1: 4 subμM ligands
    63. CTP synthase 2, Human, Q9NRF8 (Curated 04/20/24), CTPS2: 4 subμM ligands
    64. Interleukin-36 gamma, Human, Q9NZH8 (Curated 04/19/24), IL36G: 1 subμM ligands
    65. Protein fem-1 homolog B, Human, Q9UK73 (Curated 04/21/24), FEM1B: 1 subμM ligands
    66. Aminodeoxyfutalosine nucleosidase, Campylobacter pylori J99, Q9ZMY2 (Curated 04/21/24), mtnN: 3 subμM ligands

BindingDB Archive

BindingDB is archived quarterly at UC San Diego Library Digital Collections.

Coronavirus Binding Data

BindingDB has accelerated collection of COVID related data. You can find the result here.

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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.

BindingDB Data Curation

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 April 27, 2024, BindingDB's patent dataset comprises:

  1. Patents: 7,070
  2. Binding measurements: 1,096,801
  3. Compounds: 531,075
  4. Target proteins: 2,663
  5. Assays: 10,152
  6. Average Number of Targets per Patent: 1.91

BindingDB curates a set of journals not covered by other public databases. As of April 27, 2024, the status of this curation effort is as follows:

BindingDB is supported by NIH's National Institute of General Medical Sciences (R24GM144232), and is located at the Skaggs School of Pharmacy and Pharmaceutical Sciences of the University of California San Diego