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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
4a8v2ANMajor pollen allergen Bet v 1-J

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4a8v2ANMajor pollen allergen Bet v 1-J/1.000
4a862ANMajor pollen allergen Bet v 1-A/0.680
4a87NARMajor pollen allergen Bet v 1-A/0.642
4a802ANMajor pollen allergen Bet v 1-A/0.576
4a81DXCMajor pollen allergen Bet v 1-A/0.530
2iviACWIsopenicillin N synthase1.21.3.10.487
2ebaFADPutative glutaryl-CoA dehydrogenase/0.481
1hb3SCVIsopenicillin N synthase1.21.3.10.478
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.478
2hrcCHDFerrochelatase, mitochondrial4.99.1.10.478
1hb1OCVIsopenicillin N synthase1.21.3.10.477
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.476
4q71FADBifunctional protein PutA/0.476
4a86H35Major pollen allergen Bet v 1-A/0.474
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.473
2jb4A14Isopenicillin N synthase1.21.3.10.473
3zoiM2WIsopenicillin N synthase1.21.3.10.473
2vbdV10Isopenicillin N synthase1.21.3.10.472
4a83DXCMajor pollen allergen Bet v 1-A/0.468
3mpjFADGlutaryl-CoA dehydrogenase1.3.99.320.467
3p62FMNPentaerythritol tetranitrate reductase/0.467
1oc1ASVIsopenicillin N synthase1.21.3.10.464
5jscFADPutative acyl-CoA dehydrogenase/0.464
1bk0ACVIsopenicillin N synthase1.21.3.10.463
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.461
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.461
1qiqACCIsopenicillin N synthase1.21.3.10.461
1gg5FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.460
1qbgFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.460
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.460
2xc3RT8Steroid C26-monooxygenase1.14.13.1410.460
3f03FMNPentaerythritol tetranitrate reductase/0.460
4iae1DXAlr2278 protein/0.460
1bil0IURenin3.4.23.150.459
1e3eNAIAlcohol dehydrogenase 41.1.1.10.459
1udyFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.457
1w6hTITPlasmepsin-23.4.23.390.457
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.457
3p8iFMNPentaerythritol tetranitrate reductase/0.457
5kgpACOPredicted acetyltransferase/0.457
1gzuNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.456
1xe65FPPlasmepsin-23.4.23.390.456
2cy0NAPShikimate dehydrogenase (NADP(+))/0.456
4gxs0YSGlutamate receptor 2/0.456
1nuuNADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.455
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.455
4bb3KKAIsopenicillin N synthase1.21.3.10.455
5f8eSAHPossible transcriptional regulatory protein/0.455
1ykiFMNOxygen-insensitive NAD(P)H nitroreductase/0.454
4uyf73BBromodomain-containing protein 2/0.454
1bwsNDPGDP-L-fucose synthase/0.453
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.453
1dxqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.453
1nuqNXXNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.453
2d29FADAcyl-CoA dehydrogenase/0.453
2y60M8FIsopenicillin N synthase1.21.3.10.453
2zbaZBATrichothecene 3-O-acetyltransferase/0.453
3cxw7CPSerine/threonine-protein kinase pim-12.7.11.10.453
3gw9VNILanosterol 14-alpha-demethylase/0.453
4o1mNADEnoyl-acyl carrier reductase/0.453
1vyrFMNPentaerythritol tetranitrate reductase/0.452
1fm4DXCMajor pollen allergen Bet v 1-L/0.451
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.451
1obnASVIsopenicillin N synthase1.21.3.10.451
1qnfFADDeoxyribodipyrimidine photo-lyase4.1.99.30.451
2yyiFAD4-hydroxyphenylacetate 3-monooxygenase oxygenase component1.14.14.90.451
3flkNAITartrate dehydrogenase/decarboxylase1.1.1.930.451
4g7gVFVLanosterol 14-alpha-demethylase/0.451
1nvtNAPShikimate dehydrogenase (NADP(+))/0.450
2vn0TDZCytochrome P450 2C8/0.450
3raiX85Cyclin-dependent kinase 22.7.11.220.450
3tnlNADShikimate dehydrogenase (NADP(+))/0.450
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.450
1rneC60Renin3.4.23.150.449
2bu9HFVIsopenicillin N synthase1.21.3.10.449
2jj2ANPATP synthase subunit beta, mitochondrial3.6.3.140.449
3lqfNADGalactitol dehydrogenase/0.449
3mvqNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.449
3p74FMNPentaerythritol tetranitrate reductase/0.449
5dqrFAD7-hydroxymethyl chlorophyll a reductase, chloroplastic1.17.7.20.449
1bygSTUTyrosine-protein kinase CSK/0.448
1yb5NAPQuinone oxidoreductase1.6.5.50.448
1zeoC01Peroxisome proliferator-activated receptor gamma/0.448
3gwfNAPCyclohexanone monooxygenase/0.448
4nbwNADShort-chain dehydrogenase/reductase SDR/0.448
4nmdFDABifunctional protein PutA/0.448
1ma0NADAlcohol dehydrogenase class-31.1.1.10.447
2fonFADAcyl-coenzyme A oxidase/0.447
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.447
2jizANPATP synthase subunit beta, mitochondrial3.6.3.140.447
2q5g1FAPeroxisome proliferator-activated receptor delta/0.447
3br3ETHTH-type transcriptional regulator QacR/0.447
3k1wBFXRenin3.4.23.150.447
3p8jFMNPentaerythritol tetranitrate reductase/0.447
3sf6FDAGlutaryl-CoA dehydrogenase/0.447
3slkNDPPolyketide synthase extender module 2/0.447
3vcyUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.447
4bgePYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.447
4iah1DXAlr2278 protein/0.447
1bim0QBRenin3.4.23.150.446
3dv3MEKDual specificity mitogen-activated protein kinase kinase 12.7.12.20.446
3k4nFADPyranose 2-oxidase/0.446
4q73FADBifunctional protein PutA/0.446
1ia3TQ5Dihydrofolate reductase1.5.1.30.445
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.445
1xddAAYIntegrin alpha-L/0.445
3nf4FADAcyl-CoA dehydrogenase domain-containing protein/0.445
3zkyWT4Isopenicillin N synthase1.21.3.10.445
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.445
4u97STUInterleukin-1 receptor-associated kinase 42.7.11.10.445
1bvrNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.444
2f7x4EAcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.444
4c3f7KWTyrosine-protein kinase Lck2.7.10.20.444
4ipw1G7Mycocyclosin synthase1.14.21.90.444
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.443
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.443
3etgNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.443
3w2eNADNADH-cytochrome b5 reductase 31.6.2.20.443
1h63FMNPentaerythritol tetranitrate reductase/0.442
1nytNAPShikimate dehydrogenase (NADP(+))/0.442
2dvlFADAcyl-CoA dehydrogenase/0.442
2znq401Peroxisome proliferator-activated receptor delta/0.442
3b70NAPEnoyl reductase LovC10.442
3gfbNADL-threonine 3-dehydrogenase/0.442
3i59N6RCRP-like cAMP-activated global transcriptional regulator/0.442
4bznUGXSerine/threonine-protein kinase pim-12.7.11.10.442
1h50FMNPentaerythritol tetranitrate reductase/0.441
1zmcNADDihydrolipoyl dehydrogenase, mitochondrial1.8.1.40.441
2jn3JN3Fatty acid-binding protein, liver/0.441
2w06FRVCyclin-dependent kinase 22.7.11.220.441
2xw7NDPDihydrofolate reductase/0.441
4xiwAZMCarbonic anhydrase, alpha type/0.441
4yr9NADL-threonine 3-dehydrogenase, mitochondrial1.1.1.1030.441
1t9gFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.440
1xe55FEPlasmepsin-23.4.23.390.440
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.440
2uzfCAA1,4-dihydroxy-2-naphthoyl-CoA synthase/0.440
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
3zeiAWHO-acetylserine sulfhydrylase/0.440
4u9aSTUInterleukin-1 receptor-associated kinase 42.7.11.10.440