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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
1qf2TI3Thermolysin3.4.24.27

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1qf2TI3Thermolysin3.4.24.271.000
3fgdBYAThermolysin3.4.24.270.697
2tmn0FAThermolysin3.4.24.270.651
3t87UBZThermolysin3.4.24.270.637
6tmn0PIThermolysin3.4.24.270.628
4d9wX32Thermolysin3.4.24.270.625
4tmn0PKThermolysin3.4.24.270.622
4tlnLNOThermolysin3.4.24.270.614
3t8cUBWThermolysin3.4.24.270.611
4h570PJThermolysin3.4.24.270.610
3forZNPThermolysin3.4.24.270.597
3t74UBYThermolysin3.4.24.270.595
3t8dUBVThermolysin3.4.24.270.569
3t8hUBSThermolysin3.4.24.270.556
4b52RDFBacillolysin/0.551
3f28S7BThermolysin3.4.24.270.544
3f2pS3BThermolysin3.4.24.270.544
3fv41U4Thermolysin3.4.24.270.506
1psa0ZLPepsin A3.4.23.10.474
1i24UPGUDP-sulfoquinovose synthase, chloroplastic3.13.1.10.466
4rnwFMNNADPH dehydrogenase 11.6.99.10.465
3f3sNADLambda-crystallin homolog/0.464
2c12FADNitroalkane oxidase1.7.3.10.462
3bmoNAPPteridine reductase/0.462
1szgFNSCytochrome b2, mitochondrial1.1.2.30.461
1xe65FPPlasmepsin-23.4.23.390.461
4zr5RDFNeprilysin/0.460
2ylrNAPPhenylacetone monooxygenase1.14.13.920.459
2z9dFMNFMN-dependent NADH-azoreductase/0.459
4dptAGSMevalonate diphosphate decarboxylase/0.457
1rsgFADPolyamine oxidase FMS1/0.456
2cv2GSUGlutamate--tRNA ligase6.1.1.170.455
1n95HFPProtein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.454
1n95HFPProtein farnesyltransferase subunit beta2.5.1.580.454
1qrpHH0Pepsin A-43.4.23.10.454
3imeBZ2Pantothenate synthetase6.3.2.10.454
4eagATP5'-AMP-activated protein kinase subunit gamma-1/0.453
3af0GDPPantothenate kinase2.7.1.330.450
3h3t16HCollagen type IV alpha-3-binding protein/0.450
1h74AGSHomoserine kinase2.7.1.390.449
2cjfRP43-dehydroquinate dehydratase4.2.1.100.449
2qimZEAClass 10 plant pathogenesis-related protein/0.449
3h3cP1EProtein-tyrosine kinase 2-beta2.7.10.20.449
4b2gV1NUncharacterized protein/0.449
3sn6P0GBeta-2 adrenergic receptor/0.449
1qrrUPGUDP-sulfoquinovose synthase, chloroplastic3.13.1.10.448
2fxfACODiamine acetyltransferase 1/0.448
4wda2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.448
2oapANPType II secretion system protein (GspE-2)/0.447
3ekuCY9Actin-5C/0.447
3gyqSAM23S rRNA (adenosine(1067)-2'-O)-methyltransferase/0.447
1bdbNADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase/0.446
1nb6UTPGenome polyprotein2.7.7.480.446
1szfFMNCytochrome b2, mitochondrial1.1.2.30.446
2y1tDUDSPBc2 prophage-derived deoxyuridine 5'-triphosphate nucleotidohydrolase YosS3.6.1.230.446
4hr2ADPNucleoside diphosphate kinase/0.446
1g4kHQQStromelysin-13.4.24.170.445
2a94AP0L-lactate dehydrogenase1.1.1.270.445
2e20B4PPropionate kinase/0.445
2j83BATUlilysin3.4.240.445
4imfSI3N-acetylneuraminate lyase/0.445
4m5pFMNNADPH dehydrogenase/0.445
1wuuANPGalactokinase2.7.1.60.444
1xddAAYIntegrin alpha-L/0.444
3mx5UTPNucleoprotein/0.444
3nzpPLPArginine decarboxylase/0.444
3bj7COADiamine acetyltransferase 1/0.443
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.443
4z54GDPNeuronal-specific septin-3/0.443
2b58COADiamine acetyltransferase 1/0.442
3q43D66M1 family aminopeptidase3.4.110.442
4a8v2ANMajor pollen allergen Bet v 1-J/0.442
4loi1YCStimulator of interferon genes protein/0.442
4wsoNADProbable nicotinate-nucleotide adenylyltransferase/0.442
4wudANPDNA gyrase subunit B/0.442
2dpxGDPGTP-binding protein RAD/0.441
2xs4ALA_PHE_THRKarilysin3.4.240.441
3kjiADPCO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC/0.441
4dpuAGSMevalonate diphosphate decarboxylase/0.441
1m0wANPGlutathione synthetase6.3.2.30.440
1q84TZ4Acetylcholinesterase3.1.1.70.440
2a84ATPPantothenate synthetase6.3.2.10.440
2is0I03Beta-secretase 13.4.23.460.440
2wb2FADRE11660p/0.440
3hy9098A disintegrin and metalloproteinase with thrombospondin motifs 53.4.240.440
3pb3SAH16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.440
4opgFDAConserved Archaeal protein/0.440
5dw60T1Succinyl-CoA:acetate CoA-transferase/0.440