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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
2a14SAHIndolethylamine N-methyltransferase2.1.1.49

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2a14SAHIndolethylamine N-methyltransferase2.1.1.491.000
3kpjSAHPhenylethanolamine N-methyltransferase2.1.1.280.501
2i62SAHNicotinamide N-methyltransferase2.1.1.10.495
4iarERM5-hydroxytryptamine receptor 1B/0.490
2bzgSAHThiopurine S-methyltransferase2.1.1.670.480
5dxaSFGHistone-arginine methyltransferase CARM1/0.476
3gdpFAD(R)-mandelonitrile lyase 24.1.2.100.475
3up0D7SaceDAF-12/0.475
3up3XCAaceDAF-12/0.475
4r6xSAHPhosphoethanolamine N-methyltransferase/0.473
1f4fTP3Thymidylate synthase/0.471
1kphSAHCyclopropane mycolic acid synthase 12.1.1.790.470
4fqsLYAThymidylate synthase ThyA/0.467
1jtqLY3Thymidylate synthase/0.466
2ykiYKIHeat shock protein HSP 90-alpha/0.466
3bgvSAHmRNA cap guanine-N7 methyltransferase2.1.1.560.466
4eiyZMAAdenosine receptor A2a/0.466
2fj1CTCTetracycline repressor protein class D/0.463
4iaq2GM5-hydroxytryptamine receptor 1B/0.463
2tscCB3Thymidylate synthase/0.462
2vf0F89Thymidylate synthase/0.462
1wxyFRKAdenosine deaminase3.5.4.40.461
3bjcWANcGMP-specific 3',5'-cyclic phosphodiesterase/0.461
4cavMYAGlycylpeptide N-tetradecanoyltransferase2.3.1.970.461
4fgzSAHPhosphoethanolamine N-methyltransferase/0.461
5kf9ACOPredicted acetyltransferase/0.461
2x9dITCTetracycline repressor protein class D/0.460
3seqNXXGlutamine-dependent NAD(+) synthetase6.3.5.10.460
1zprCB3Thymidylate synthase/0.459
2j9fTHV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial1.2.4.40.458
2j9fTHV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial1.2.4.40.458
3bw4FMNPutative 2-nitropropane dioxygenase/0.457
1dnpMHFDeoxyribodipyrimidine photo-lyase4.1.99.30.456
1hvyD16Thymidylate synthase2.1.1.450.455
1ndzFR5Adenosine deaminase3.5.4.40.455
1w1rZEACytokinin dehydrogenase 11.5.99.120.455
2ok7FADFerredoxin--NADP reductase, apicoplast/0.455
4o71CPBBromodomain-containing protein 4/0.455
2hcdBIVVitamin D3 receptor A/0.454
2ykeYKEHeat shock protein HSP 90-alpha/0.454
3aiqHBO4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase 1b, chloroplastic3.2.1.1820.454
4gevCB3Thymidylate synthase/0.454
1aiqCB3Thymidylate synthase/0.453
1tlcF89Thymidylate synthase/0.453
3e8sSAHUncharacterized protein/0.453
4rv9SAHD-mycarose 3-C-methyltransferase/0.453
4necSAHPutative SAM-dependent methyltransferase/0.452
5bp9SAHPutative methyltransferase protein/0.452
5dx1SFGHistone-arginine methyltransferase CARM1/0.452
3g493G4Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.451
3n0hTOPDihydrofolate reductase1.5.1.30.451
4eb4D16Thymidylate synthase2.1.1.450.451
1axwMTXThymidylate synthase/0.450
1dduCB3Thymidylate synthase/0.450
1o6qR17Squalene--hopene cyclase4.2.1.1290.450
3p9kSAHCaffeic acid O-methyltransferase/0.450
3vt65YIVitamin D3 receptor/0.450
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.450
4pnmNU1Tankyrase-22.4.2.300.450
1h36R88Squalene--hopene cyclase4.2.1.1290.449
1kceCB3Thymidylate synthase/0.449
1umlFR4Adenosine deaminase3.5.4.40.449
3aivHBO4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase, chloroplastic3.2.1.1820.449
1f4gTP4Thymidylate synthase/0.448
5k2aZMAAdenosine receptor A2a/0.448
1db48INPhospholipase A2, membrane associated/0.447
1jlaTNKGag-Pol polyprotein2.7.7.490.447
3jq8DX3Pteridine reductase, putative/0.447
3wv9FEGHmd co-occurring protein HcgE/0.447
4at3LTIBDNF/NT-3 growth factors receptor2.7.10.10.447
4fr0SAMArsenic methyltransferase/0.447
1pydTDPPyruvate decarboxylase isozyme 1/0.446
2i0zFADNAD(FAD)-utilizing dehydrogenases/0.446
4bj9UHBTankyrase-22.4.2.300.446
4eueNAITrans-2-enoyl-CoA reductase [NADH]/0.446
4fjz4FJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.446
4iv0SAMPhosphoethanolamine N-methyltransferase, putative/0.446
1fwmCB3Thymidylate synthase/0.445
3iesM24Luciferin 4-monooxygenase1.13.12.70.445
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.445
4xba5GPAprataxin-like protein30.445
5uviZMAAdenosine receptor A2a/0.445
2mm3CHOGastrotropin/0.444
3tm5SFGUncharacterized protein/0.444
4yfy1YJVioF/0.444
5je2SAHMethyl transferase/0.444
1v7aFRCAdenosine deaminase3.5.4.40.443
1y60H4M5,6,7,8-tetrahydromethanopterin hydro-lyase4.2.1.1470.443
2ftoCB3Thymidylate synthase/0.443
2wsa646Glycylpeptide N-tetradecanoyltransferase/0.443
2xvv9DNSerum albumin/0.443
3ey4352Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.443
3ou7SAMSAM-dependent methyltransferase/0.443
3uj7SAMPhosphoethanolamine N-methyltransferase/0.443
3v0tATRPerakine reductase1.1.1.3170.443
4elf35IDihydrofolate reductase/0.443
3qakUKAAdenosine receptor A2a/0.443
1ejiTHFSerine hydroxymethyltransferase, cytosolic/0.442
2cvjFADThioredoxin reductase related protein/0.442
2ix5FADAcyl-coenzyme A oxidase 4, peroxisomal1.3.3.60.442
3uj8SFGPhosphoethanolamine N-methyltransferase/0.442
4i9i1DYTankyrase-12.4.2.300.442
5ccxSAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A2.1.1.2200.442
1h35R01Squalene--hopene cyclase4.2.1.1290.441
3gyuDL7Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.441
3hz142CHeat shock protein HSP 90-alpha/0.441
3rupADPBiotin carboxylase6.3.4.140.441
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.441
1trgCB3Thymidylate synthase/0.440
2ykcYKCHeat shock protein HSP 90-alpha/0.440
3a783EVVitamin D3 receptor/0.440
4caxMYAGlycylpeptide N-tetradecanoyltransferase2.3.1.970.440
5jtbZMAAdenosine receptor A2a/0.440