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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
4flpJQ1Bromodomain testis-specific protein

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4flpJQ1Bromodomain testis-specific protein/1.000
4uyg73BBromodomain-containing protein 2/0.624
4a9oA9OBromodomain-containing protein 2/0.594
4mr61K0Bromodomain-containing protein 2/0.580
4o701QKBromodomain-containing protein 4/0.578
4alhA9PBromodomain-containing protein 2/0.575
4ogiR78Bromodomain-containing protein 4/0.575
4uyf73BBromodomain-containing protein 2/0.569
5bt52LOBromodomain-containing protein 2/0.568
4aknS5BBromodomain-containing protein 2/0.567
4a9nA9NBromodomain-containing protein 2/0.565
4j0s1H3Bromodomain-containing protein 4/0.562
4nr52LLCREB-binding protein/0.561
4c67L5SBromodomain-containing protein 4/0.559
4bjx73BBromodomain-containing protein 4/0.556
4lrg1XBBromodomain-containing protein 4/0.554
4o761M3Bromodomain-containing protein 4/0.553
4men25KBromodomain-containing protein 4/0.552
4bw39BMBromodomain-containing protein 4/0.548
4j1p1K0Bromodomain-containing protein 2/0.547
4o71CPBBromodomain-containing protein 4/0.547
4a9mP9MBromodomain-containing protein 2/0.545
4bw2UTHBromodomain-containing protein 4/0.545
4hxs1A3Bromodomain-containing protein 4/0.545
4c66H4CBromodomain-containing protein 4/0.543
4qzsJQ1Bromodomain-containing protein 4/0.543
2yemWSHBromodomain-containing protein 4/0.542
4j0r1H2Bromodomain-containing protein 4/0.540
2ydwWSHBromodomain-containing protein 2/0.539
2yekEAMBromodomain-containing protein 2/0.539
4mr41K0Bromodomain-containing protein 4/0.535
4a9iP9IBromodomain-containing protein 2/0.533
4nqmY1ZBromodomain-containing protein 4/0.530
4py6R78Bromodomain protein, putative/0.526
4lr61XABromodomain-containing protein 4/0.524
3aqaBYHBromodomain-containing protein 2/0.523
2yelWSHBromodomain-containing protein 4/0.521
4f3i0S6Bromodomain-containing protein 4/0.517
4hxr1A4Bromodomain-containing protein 4/0.517
4o74R78Bromodomain-containing protein 4/0.517
4mr51K0Bromodomain-containing protein 2/0.513
4hxn1A7Bromodomain-containing protein 4/0.512
4bw1S5BBromodomain-containing protein 4/0.510
4hby13FBromodomain-containing protein 4/0.505
4meq25OBromodomain-containing protein 4/0.503
4a9e3PFBromodomain-containing protein 2/0.502
3zyu1GHBromodomain-containing protein 4/0.501
4lyw21QBromodomain-containing protein 4/0.496
4h9614QDihydrofolate reductase1.5.1.30.490
3pqbVGPPutative oxidoreductase/0.489
4o78SAVBromodomain-containing protein 4/0.488
4alg1GHBromodomain-containing protein 2/0.485
4hxo1A6Bromodomain-containing protein 4/0.482
3irm1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.481
4j3i1K0Bromodomain-containing protein 4/0.480
4mep24YBromodomain-containing protein 4/0.479
1k7l544Peroxisome proliferator-activated receptor alpha/0.478
3oqkS52Renin3.4.23.150.477
4ia3BIVVitamin D3 receptor A/0.477
4ir5IR5Bromodomain adjacent to zinc finger domain protein 2B/0.477
2po7CHDFerrochelatase, mitochondrial4.99.1.10.475
2vbdV10Isopenicillin N synthase1.21.3.10.473
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.473
3vt8YI3Vitamin D3 receptor/0.473
4awp99AHeat shock protein HSP 90-alpha/0.473
4cfl8DQBromodomain-containing protein 4/0.473
5bt42LOBromodomain-containing protein 4/0.472
2v5aLZLBiotin carboxylase6.3.4.140.471
4kne1CYDihydrofolate reductase1.5.1.30.471
1klkPMDDihydrofolate reductase1.5.1.30.470
3v9v21LPeroxisome proliferator-activated receptor gamma/0.470
2hcdBIVVitamin D3 receptor A/0.467
2znpK55Peroxisome proliferator-activated receptor delta/0.467
3vt9YI4Vitamin D3 receptor/0.467
4fhi0S4Vitamin D3 receptor A/0.467
4j03FVSBifunctional epoxide hydrolase 23.1.3.760.467
4y8wSTRSteroid 21-hydroxylase/0.467
3tw6ADPPyruvate carboxylase/0.466
4hbw14ZBromodomain-containing protein 4/0.466
4r20AERCytochrome P450 family 17 polypeptide 2/0.466
3pm1ETHTH-type transcriptional regulator QacR/0.465
3w5rLOAVitamin D3 receptor/0.465
4cd2FOLDihydrofolate reductase1.5.1.30.465
3sn6P0GBeta-2 adrenergic receptor/0.465
3jsxCC2NAD(P)H dehydrogenase [quinone] 11.6.5.20.463
4nkvAERSteroid 17-alpha-hydroxylase/17,20 lyase/0.463
4l8u9AZSerum albumin/0.462
1bq1CB3Thymidylate synthase/0.461
2oaxSNLMineralocorticoid receptor/0.461
3srqQ19Dihydrofolate reductase1.5.1.30.461
4mv8ACPBiotin carboxylase6.3.4.140.461
4nky3QZSteroid 17-alpha-hydroxylase/17,20 lyase/0.461
1rkhVD2Vitamin D3 receptor/0.460
2vn0TDZCytochrome P450 2C8/0.460
3vt7VDXVitamin D3 receptor/0.460
4iteTEYVitamin D3 receptor/0.460
4xe606UDihydrofolate reductase1.5.1.30.460
1dnaCB3Thymidylate synthase/0.459
1p93DEXGlucocorticoid receptor/0.459
2hasC3OVitamin D3 receptor/0.459
2hb7O1CVitamin D3 receptor/0.459
3kpzZNEVitamin D3 receptor/0.458
3vtdTKDVitamin D3 receptor/0.458
4qa2SHHHistone deacetylase 83.5.1.980.458
2cibCM6Lanosterol 14-alpha demethylase1.14.13.700.457
2p4yC03Peroxisome proliferator-activated receptor gamma/0.457
3gwfFADCyclohexanone monooxygenase/0.457
3nrrD16Bifunctional dihydrofolate reductase-thymidylate synthase/0.457
1m78NDPDihydrofolate reductase1.5.1.30.456
1t1rIMB1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.456
3i1fGCPTranslation initiation factor 2 subunit gamma/0.456
3slkNDPPolyketide synthase extender module 2/0.456
2hamC33Vitamin D3 receptor/0.455
2pe24643-phosphoinositide-dependent protein kinase 12.7.11.10.455
1df7MTXDihydrofolate reductase1.5.1.30.454
1kzjCB3Thymidylate synthase/0.454
2iviACWIsopenicillin N synthase1.21.3.10.454
4qmxH8HSerine/threonine-protein kinase 242.7.11.10.454
4rbs0RVMetallo-beta-lactamase type 2/0.454
5e8wSTUTGF-beta receptor type-12.7.11.300.454
1ia3TQ5Dihydrofolate reductase1.5.1.30.453
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.453
4n702HXSerine/threonine-protein kinase pim-12.7.11.10.453
4rrhA3SProbable threonine--tRNA ligase 26.1.1.30.453
1fmlRTLRetinol dehydratase/0.452
2hm9TRRDihydrofolate reductase1.5.1.30.452
3c11GDMATP-dependent molecular chaperone HSP82/0.452
3hcrCHDFerrochelatase, mitochondrial4.99.1.10.452
4cfkLY2Bromodomain-containing protein 4/0.452
4ez50RSCyclin-dependent kinase 62.7.11.220.452
1ie4T44Transthyretin/0.451
1xddAAYIntegrin alpha-L/0.451
2c31ADPOxalyl-CoA decarboxylase4.1.1.80.451
2qd3CHDFerrochelatase, mitochondrial4.99.1.10.451
2w3vTOPDihydrofolate reductase/0.451
3r7iX9ICyclin-dependent kinase 22.7.11.220.451
3sn7540cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.451
3vrwYS5Vitamin D3 receptor/0.451
1bygSTUTyrosine-protein kinase CSK/0.450
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.450
1ie8KH1Vitamin D3 receptor/0.450
1jpaANPEphrin type-B receptor 22.7.10.10.450
1kqwRTLCellular retinol-binding protein type II/0.450
2i1vADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 32.7.1.1050.450
2znq401Peroxisome proliferator-activated receptor delta/0.450
3ii43IIDihydrolipoyl dehydrogenase1.8.1.40.450
3qm4PN0Cytochrome P450 2D6/0.450
4cztCPSCBL-interacting serine/threonine-protein kinase 232.7.11.10.450
4g1z0VPVitamin D3 receptor A/0.450
4p6wMOFGlucocorticoid receptor/0.450
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.449
3eel53TUncharacterized protein/0.449
3h3sH15Collagen type IV alpha-3-binding protein/0.449
3mtlFEFCyclin-dependent kinase 162.7.11.220.449
3u4uLNHCasein kinase II subunit alpha2.7.11.10.449
4trnNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.449
4wh3ATPN-acetylhexosamine 1-kinase2.7.1.1620.449
1diuBDMDihydrofolate reductase1.5.1.30.448
1iyzNDPProbable quinone oxidoreductase/0.448
1s19MC9Vitamin D3 receptor/0.448
2c3qGTXGlutathione S-transferase theta-12.5.1.180.448
2chw039Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.448
2hw2RFPRifampin ADP-ribosyl transferase/0.448
3a783EVVitamin D3 receptor/0.448
3l8sBFFMitogen-activated protein kinase 14/0.448
3qlrQLRDihydrofolate reductase1.5.1.30.448
3qpvADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 32.7.1.1050.448
3sp6IL2Peroxisome proliferator-activated receptor alpha/0.448
1pkfEPDEpothilone C/D epoxidase1.140.447
1wvgAPRCDP-glucose 4,6-dehydratase4.2.1.450.447
1x8lOXRRetinol dehydratase/0.447
2i40BLZCyclin-dependent kinase 22.7.11.220.447
2vtpLZ9Cyclin-dependent kinase 22.7.11.220.447
2wotZZGTGF-beta receptor type-12.7.11.300.447
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.447
1bk0ACVIsopenicillin N synthase1.21.3.10.446
1hncGDNGlutathione S-transferase Mu 22.5.1.180.446
1oc1ASVIsopenicillin N synthase1.21.3.10.446
1phgMYTCamphor 5-monooxygenase1.14.15.10.446
1qnfFADDeoxyribodipyrimidine photo-lyase4.1.99.30.446
1uy7PU4Heat shock protein HSP 90-alpha/0.446
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.446
2ovhAS0Progesterone receptor/0.446
2ovmAS0Progesterone receptor/0.446
2znnS44Peroxisome proliferator-activated receptor alpha/0.446
3gobHXXDdmC/0.446
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.446
4zm6ACON-acetyl-beta-D glucosaminidase/0.446
3qakUKAAdenosine receptor A2a/0.446
1txiTX5Vitamin D3 receptor/0.445
2fgkATPAlpha-hemolysin translocation ATP-binding protein HlyB/0.445
3orfNADDihydropteridine reductase1.5.1.340.445
3pe2E1BCasein kinase II subunit alpha2.7.11.10.445
3r8zZ63Cyclin-dependent kinase 22.7.11.220.445
3w5p4OAVitamin D3 receptor/0.445
3zk5Z18Cytochrome P450 monooxygenase PikC/0.445
4aoi4K0Hepatocyte growth factor receptor2.7.10.10.445
4ia2BIVVitamin D3 receptor A/0.445
2vd5BI8Myotonin-protein kinase2.7.11.10.444
2wgjVGHHepatocyte growth factor receptor2.7.10.10.444
2xvv9DNSerum albumin/0.444
3anmSYD1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.444
3d84NDPDihydrofolate reductase1.5.1.30.444
3ewrAPRReplicase polyprotein 1a3.4.220.444
4egnTWOCytochrome P450/0.444
4g1d0VKVitamin D3 receptor A/0.444
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.443
1qjfACSIsopenicillin N synthase1.21.3.10.443
1uzwCDHIsopenicillin N synthase1.21.3.10.443
1zgyBRLPeroxisome proliferator-activated receptor gamma/0.443
2e9v85ASerine/threonine-protein kinase Chk12.7.11.10.443
2jizANPATP synthase subunit beta, mitochondrial3.6.3.140.443
2v58LZJBiotin carboxylase6.3.4.140.443
2ww4ADP4-diphosphocytidyl-2-C-methyl-D-erythritol kinase2.7.1.1480.443
3c0i3AMPeripheral plasma membrane protein CASK2.7.11.10.443
3c1tMYCDihydroflavonol 4-reductase1.1.1.2190.443
3p3zP3ZPutative cytochrome P450/0.443
4ryvZEAProtein LlR18A/0.443
1drbMTXDihydrofolate reductase1.5.1.30.442
2harOCCVitamin D3 receptor/0.442
2pmdGNPTranslation initiation factor 2 subunit gamma/0.442
2vv9IM9Cyclin-dependent kinase 22.7.11.220.442
3cv9VDXVitamin D3 dihydroxylase/0.442
3h6vNS6Glutamate receptor 2/0.442
4dp3MMVBifunctional dihydrofolate reductase-thymidylate synthase/0.442
4fgg0U5Dihydrofolate reductase1.5.1.30.442
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.442
4o1mNADEnoyl-acyl carrier reductase/0.442
5eypLOCTubulin beta chain/0.442
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441
1y0s331Peroxisome proliferator-activated receptor delta/0.441
2b55D31Cyclin-dependent kinase 22.7.11.220.441
2b7aIZATyrosine-protein kinase JAK2/0.441
2xvw9NRSerum albumin/0.441
3d7kD7KBenzaldehyde lyase/0.441
3id8MRKGlucokinase2.7.1.20.441
3oafOAGDihydrofolate reductase1.5.1.30.441
3oqfS51Renin3.4.23.150.441
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.441
3tmz06XCytochrome P450 2B41.14.14.10.441
4bf2STUMitogen-activated protein kinase kinase kinase 52.7.11.250.441
4c1iEH9cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.441
4fkr45KCyclin-dependent kinase 22.7.11.220.441
4g8zTOPDihydrofolate reductase1.5.1.30.441
4y93746Tyrosine-protein kinase/0.441
1draMTXDihydrofolate reductase1.5.1.30.440
1hb3SCVIsopenicillin N synthase1.21.3.10.440
3cylVITBasic phospholipase A2 homolog piratoxin-2/0.440
3dd125DGlycogen phosphorylase, liver form2.4.1.10.440
3r34COA4-hydroxybenzoyl-CoA thioesterase3.1.2.230.440
3zkyWT4Isopenicillin N synthase1.21.3.10.440
4b7sQLECytochrome P450 monooxygenase PikC/0.440
4h9tHL4Phosphotriesterase/0.440