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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
2obfF83Phenylethanolamine N-methyltransferase2.1.1.28

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2obfF83Phenylethanolamine N-methyltransferase2.1.1.281.000
2g8nF83Phenylethanolamine N-methyltransferase2.1.1.280.684
2onyTMJPhenylethanolamine N-methyltransferase2.1.1.280.623
2opbF21Phenylethanolamine N-methyltransferase2.1.1.280.620
2onzTMJPhenylethanolamine N-methyltransferase2.1.1.280.618
2g72F21Phenylethanolamine N-methyltransferase2.1.1.280.589
3vev0H4Glucokinase2.7.1.20.510
3s41S41Glucokinase2.7.1.20.508
4dhyS41Glucokinase2.7.1.20.505
3vf60H6Glucokinase2.7.1.20.504
3h3qH13Collagen type IV alpha-3-binding protein/0.498
4ea2RWZDehydrosqualene synthase/0.486
2bfaCB3Pteridine reductase 11.5.1.330.483
2ociTYCValacyclovir hydrolase3.10.481
3fhxPXLPyridoxal kinase2.7.1.350.481
3k4s0MOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.480
4n1fCZHObelin/0.480
3gytDL4Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.476
1uhjCZBAequorin-2/0.475
1y2k7DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.475
2x9vTMQPteridine reductase/0.475
3pg3DG7Mitogen-activated protein kinase 14/0.475
4bjbP34Tankyrase-22.4.2.300.474
1n71COAAac(6')-Ii protein/0.473
1rftPXMPyridoxal kinase2.7.1.350.473
3o73O73Ribosyldihydronicotinamide dehydrogenase [quinone]/0.473
3lm4HPXCatechol 2,3-dioxygenase/0.472
1g49111Stromelysin-13.4.24.170.471
3iakEV1cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.471
3nxyD2HDihydrofolate reductase1.5.1.30.471
4xbfFADLysine-specific histone demethylase 1A10.471
1b3dS27Stromelysin-13.4.24.170.470
1qv1CZHObelin/0.470
3djlFADPutative acyl-CoA dehydrogenase AidB1.3.990.470
3exhTPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial1.2.4.10.470
3exhTPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial1.2.4.10.470
4iwv1J9Glucokinase2.7.1.20.470
4wx2F6FTryptophan synthase alpha chain/0.470
4wx2F6FTryptophan synthase beta chain4.2.1.200.470
1qv0CZHObelin/0.469
1y2bDEEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.469
4zu44TGWxcM-like protein/0.469
3aosJH2Hemolymph juvenile hormone binding protein/0.468
2zevIPEGeranylgeranyl pyrophosphate synthase/0.467
3up0D7SaceDAF-12/0.467
4f6xZYLDehydrosqualene synthase/0.467
1be4PCGNucleoside diphosphate kinase A 22.7.4.60.466
4b6s2HN3-dehydroquinate dehydratase4.2.1.100.466
1bqoN25Stromelysin-13.4.24.170.465
1nbuPH2Dihydroneopterin aldolase/0.465
1re0AFBADP-ribosylation factor 1/0.465
1re0AFBARF guanine-nucleotide exchange factor 1/0.465
5hwrCOAHydroxymethylglutaryl-CoA synthase/0.465
1zklIBMHigh affinity cAMP-specific 3',5'-cyclic phosphodiesterase 7A3.1.4.530.464
3lxeTORCarbonic anhydrase 14.2.1.10.464
3uzxAOX3-oxo-5-beta-steroid 4-dehydrogenase/0.464
4l5b1UXDeoxycytidine kinase2.7.1.740.464
2cleF6FTryptophan synthase alpha chain/0.463
3bjcWANcGMP-specific 3',5'-cyclic phosphodiesterase/0.463
3i53SAH2,7-dihydroxy-5-methyl-1-naphthoate 7-O-methyltransferase/0.463
2a9z26AAdenosine kinase2.7.1.200.462
3aivHBO4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase, chloroplastic3.2.1.1820.462
4la7A1OAbscisic acid receptor PYL2/0.462
1ddtAPUDiphtheria toxin/0.461
2h3wHC5Carnitine O-acetyltransferase2.3.1.70.461
2watCOAFatty acid synthase subunit alpha2.3.1.860.461
1h42FADFerredoxin--NADP reductase1.18.1.20.460
3fowIMHPurine nucleoside phosphorylase/0.460
4bjcRPBTankyrase-22.4.2.300.460
4jln18VDeoxycytidine kinase2.7.1.740.460
1rzuADPGlycogen synthase 12.4.1.210.459
1xonPILcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.459
4ap1NAPSteroid monooxygenase/0.459
4iqqD16Thymidylate synthase/0.459
3ojxFMNNADPH--cytochrome P450 reductase/0.458
4mprTPPBenzoylformate decarboxylase4.1.1.70.458
1ye6NADNAD(P)H-dependent D-xylose reductase1.1.1.3070.457
2b3vACODiamine acetyltransferase 1/0.457
2clhF19Tryptophan synthase alpha chain/0.457
2rdn1PL1-deoxypentalenic acid 11-beta-hydroxylase1.14.11.350.457
3ojwFADNADPH--cytochrome P450 reductase/0.457
4n1gCEIObelin/0.457
1kiaSAMGlycine N-methyltransferase2.1.1.200.456
2g25TDKPyruvate dehydrogenase E1 component1.2.4.10.456
3cqeP91Wee1-like protein kinase2.7.10.20.456
4bfuZVUPantothenate kinase2.7.1.330.456
4qa0SHHHistone deacetylase 83.5.1.980.456
4z87GDPInosine-5'-monophosphate dehydrogenase/0.456
1b8yIN7Stromelysin-13.4.24.170.455
1biwS80Stromelysin-13.4.24.170.455
1d8mBBHStromelysin-13.4.24.170.455
1ej3CZHAequorin-2/0.455
1fuyFIPTryptophan synthase alpha chain/0.455
2bf7HBIPteridine reductase 11.5.1.330.455
2vqbFADPutative flavin-containing monooxygenase/0.455
2z2dHSIMacrophage metalloelastase3.4.24.650.455
3c3dFO12-phospho-L-lactate transferase/0.455
1gky5GPGuanylate kinase2.7.4.80.454
1qzzSAMAclacinomycin 10-hydroxylase RdmB4.1.10.454
1stdBFSScytalone dehydratase4.2.1.940.454
1w6jR71Lanosterol synthase5.4.99.70.454
2trsIPLTryptophan synthase alpha chain/0.454
3h4vDVPPteridine reductase 11.5.1.330.454
3ndjJHZMethyltransferase/0.454
2r2gEMFEugenol synthase 11.1.1.3180.453
3g45988cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.453
3ipuO40Oxysterols receptor LXR-alpha/0.453
3pkbY16Methionine aminopeptidase 2/0.453
3qp8HL0Transcriptional activator, LuxR/UhpA family of regulators/0.453
3uaxNOSPurine nucleoside phosphorylase DeoD-type/0.453
4bqzGNPEctonucleoside triphosphate diphosphohydrolase 2/0.453
4dch4DCGlucokinase2.7.1.20.453
4dvi2IWTankyrase-12.4.2.300.453
5ai5BSUBifunctional epoxide hydrolase 23.1.3.760.453
1dlrMXADihydrofolate reductase1.5.1.30.452
1xdkREARetinoic acid receptor beta/0.452
2flhZEACytokinin-specific binding protein/0.452
2o1xTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.452
2p1u4TNRetinoic acid receptor RXR-alpha/0.452
3ch6311Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.452
3gx9TXDMorphinone reductase/0.452
3i6rJ5ZDihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.452
3iktNADRedox-sensing transcriptional repressor Rex/0.452
4fj1GEN17beta-hydroxysteroid dehydrogenase/0.452
4hbm0Y7E3 ubiquitin-protein ligase Mdm26.3.20.452
4l6s1WQPoly [ADP-ribose] polymerase 12.4.2.300.452
4mt92D6Tankyrase-12.4.2.300.452
1a50FIPTryptophan synthase alpha chain/0.451
1kf6HQOFumarate reductase iron-sulfur subunit1.3.5.10.451
1kf6HQOFumarate reductase subunit C/0.451
1kf6HQOFumarate reductase subunit D/0.451
1p8dCO1Oxysterols receptor LXR-beta/0.451
2c42TPPPyruvate synthase/0.451
2fm0M98cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.451
2y67N21UDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.451
3sqzCOAPutative hydroxymethylglutaryl-CoA synthase/0.451
3w0uHPWLactoylglutathione lyase4.4.1.50.451
4uy6SAHHistidine N-alpha-methyltransferase/0.451
1frbZSTAldose reductase-related protein 2/0.450
1k9sFM2Purine nucleoside phosphorylase DeoD-type/0.450
2gouFMNNADH:flavin oxidoreductase Sye1/0.450
2jfz003Glutamate racemase/0.450
2ouu35GcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.450
3itzP66Mitogen-activated protein kinase 14/0.450
4x9dU5PUncharacterized protein MJ1435/0.450
1dghNDPCatalase1.11.1.60.449
1diaL24C-1-tetrahydrofolate synthase, cytoplasmic1.5.1.50.449
1o6qR17Squalene--hopene cyclase4.2.1.1290.449
1pd8CO4Dihydrofolate reductase1.5.1.30.449
2b58COADiamine acetyltransferase 1/0.449
3vg9ZMAAdenosine receptor A2a/0.449
3zkuHCVIsopenicillin N synthase1.21.3.10.449
1pq944BOxysterols receptor LXR-beta/0.448
1r00SAHAclacinomycin 10-hydroxylase RdmB4.1.10.448
1rzy5ASHistidine triad nucleotide-binding protein 130.448
1yw7A41Methionine aminopeptidase 2/0.448
2poqISDTrans-1,2-dihydrobenzene-1,2-diol dehydrogenase1.3.1.200.448
3ar6TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.448
3iisPIDPeridinin-chlorophyll a-binding protein 1, chloroplastic/0.448
4bb2STRCorticosteroid-binding globulin/0.448
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.448
4isg1FYGlucokinase2.7.1.20.448
1e2lTMCThymidine kinase/0.447
1mc0PCGcGMP-dependent 3',5'-cyclic phosphodiesterase/0.447
1q0rAKTAclacinomycin methylesterase RdmC3.1.1.950.447
1tllFADNitric oxide synthase, brain1.14.13.390.447
1z8962PAldose reductase1.1.1.210.447
2e8uIPEGeranylgeranyl pyrophosphate synthase/0.447
2io6330Wee1-like protein kinase2.7.10.20.447
3ituIBMcGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.447
3iu9T07Methionine aminopeptidase 2/0.447
3pqbVGPPutative oxidoreductase/0.447
3stdMQ0Scytalone dehydratase4.2.1.940.447
4da6GA2Purine nucleoside phosphorylase DeoD-type2.4.2.10.447
3nyaJTZBeta-2 adrenergic receptor/0.447
1e92HBIPteridine reductase 11.5.1.330.446
1txtCAAHMG-CoA synthase/0.446
1xorZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.446
2vdyHCYCorticosteroid-binding globulin/0.446
3adaNADSubunit alpha of sarocosine oxidase/0.446
3h3r14HCollagen type IV alpha-3-binding protein/0.446
3hv3R49Mitogen-activated protein kinase 14/0.446
3w3zGTPGTP-binding nuclear protein Ran/0.446
4kugNAD3-hydroxybutyryl-CoA dehydrogenase/0.446
4lm4JPZcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
1ejbINJ6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.445
1jf0CZHObelin/0.445
1lkeDOGBilin-binding protein/0.445
2clfF6FTryptophan synthase alpha chain/0.445
2r6jNDPEugenol synthase 11.1.1.3180.445
2x20PIDPeridinin-chlorophyll a-binding protein 1, chloroplastic/0.445
3ar4TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.445
3dcwEZLCarbonic anhydrase 24.2.1.10.445
3gieACPSensor histidine kinase DesK2.7.13.30.445
3t37FADPyridoxine 4-oxidase/0.445
4br0AU1Ectonucleoside triphosphate diphosphohydrolase 2/0.445
4f0e0RUPoly [ADP-ribose] polymerase 152.4.2.300.445
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.445
7catNDPCatalase1.11.1.60.445
1k8cNAPNAD(P)H-dependent D-xylose reductase1.1.1.3070.444
1ogiFADFerredoxin--NADP reductase1.18.1.20.444
1sazACPProbable butyrate kinase 2/0.444
2fjeFADAdenylylsulfate reductase, subunit A (AprA)/0.444
2fm5M99cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.444
2ji9ADPOxalyl-CoA decarboxylase4.1.1.80.444
2weyEV1cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.444
2zymACXPeriplasmic binding protein/0.444
3ar7TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.444
3d3p20AcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.444
3h3t16HCollagen type IV alpha-3-binding protein/0.444
3ojgHL4Phosphotriesterase/0.444
4fc00T2Serine/threonine-protein kinase B-raf2.7.11.10.444
4gv8DUPDUTPase/0.444
4n4v2GYTankyrase-12.4.2.300.444
1a26CNAPoly [ADP-ribose] polymerase 12.4.2.300.443
1nc1MTH5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase3.2.2.90.443
1q63AIQQueuine tRNA-ribosyltransferase2.4.2.290.443
1z6tADPApoptotic protease-activating factor 1/0.443
2oazI96Methionine aminopeptidase 2/0.443
3fu5492Leukotriene A-4 hydrolase3.3.2.60.443
3mteSAM16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.443
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.443
4azwATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD/0.443
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.443
4d2dALA_ALA_ALADi-or tripeptide:H+ symporter/0.443
4dpeNGHStromelysin-13.4.24.170.443
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.443
4ggzBTNBll1558 protein/0.443
4gm4TZDBenzoylformate decarboxylase4.1.1.70.443
4hyvPEPPyruvate kinase 12.7.1.400.443
4li81XQTankyrase-12.4.2.300.443
5dhaGNPGTP-binding nuclear protein Ran/0.443
1pq6965Oxysterols receptor LXR-beta/0.442
1trgCB3Thymidylate synthase/0.442
1ygjRMCPyridoxal kinase2.7.1.350.442
2a9y26AAdenosine kinase2.7.1.200.442
2bbqPFGThymidylate synthase/0.442
2ga2A19Methionine aminopeptidase 2/0.442
2hveADPNucleoside diphosphate kinase A2.7.4.60.442
2stdCRPScytalone dehydratase4.2.1.940.442
2vz0D64Pteridine reductase/0.442
3c3xNAPEugenol synthase 11.1.1.3180.442
3g1rFIT3-oxo-5-beta-steroid 4-dehydrogenase/0.442
3m0iZSTAldose reductase1.1.1.210.442
3ntrNADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase1.1.1.180.442
3vo2FADFerredoxin--NADP reductase/0.442
5hwoHMGHydroxymethylglutaryl-CoA synthase/0.442
1caqDPSStromelysin-13.4.24.170.441
1nbhSAMGlycine N-methyltransferase2.1.1.200.441
1o6rR19Squalene--hopene cyclase4.2.1.1290.441
1t91GTPRas-related protein Rab-7a/0.441
1thnADPAnti-sigma F factor/0.441
1ve3SAMUncharacterized protein/0.441
1wxyFRKAdenosine deaminase3.5.4.40.441
1y52BTNAvidin-related protein 4/5/0.441
2c1bCQPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.441
2gfsPQBMitogen-activated protein kinase 14/0.441
2hvdADPNucleoside diphosphate kinase A2.7.4.60.441
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.441
4a6eASEAcetylserotonin O-methyltransferase2.1.1.40.441
4biwANPSensor histidine kinase CpxA/0.441
4gd9BTNStreptavidin/0.441
4imfSI3N-acetylneuraminate lyase/0.441
4lgaA2OAbscisic acid receptor PYL2/0.441
4oew5IOcGMP-specific 3',5'-cyclic phosphodiesterase/0.441
1al7HSTPeroxisomal (S)-2-hydroxy-acid oxidase1.1.3.150.440
1ivrCBAAspartate aminotransferase, mitochondrial2.6.1.10.440
1kmvLIIDihydrofolate reductase1.5.1.30.440
1p44GEQEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.440
1yw9A84Methionine aminopeptidase 2/0.440
2ji7ADPOxalyl-CoA decarboxylase4.1.1.80.440
2jibADPOxalyl-CoA decarboxylase4.1.1.80.440
2pdxZSTAldose reductase1.1.1.210.440
2wjoQUDBeta-secretase 13.4.23.460.440
3bj7COADiamine acetyltransferase 1/0.440
3dhaC6LN-acyl homoserine lactonase AiiA3.1.1.810.440
3dlcSAMSAM (And some other nucleotide) binding motif:Generic methyltransferase/0.440
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
3f3y4OABile salt sulfotransferase2.8.2.140.440
3jzfJZKBiotin carboxylase6.3.4.140.440
3m8cEQUSteroid Delta-isomerase5.3.3.10.440
3occDIHPurine nucleoside phosphorylase DeoD-type/0.440
3qp6HL6Transcriptional activator, LuxR/UhpA family of regulators/0.440
3vf2ADPnebramycin 5' synthase6.1.2.20.440
4fj0HHF17beta-hydroxysteroid dehydrogenase/0.440
4xzjNADPutative NAD(+)--arginine ADP-ribosyltransferase Vis2.4.2.310.440