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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
3lg5BTMEpi-isozizaene synthase4.2.3.37

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3lg5BTMEpi-isozizaene synthase4.2.3.371.000
2rd2QSIGlutamine--tRNA ligase6.1.1.180.479
3zecANPAdenosine monophosphate-protein transferase SoFic2.7.7.n10.476
2rdn1PL1-deoxypentalenic acid 11-beta-hydroxylase1.14.11.350.472
1w19T2P6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.469
1r58AO5Methionine aminopeptidase 2/0.468
2e8uIPEGeranylgeranyl pyrophosphate synthase/0.468
1nqxRLP6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.465
1euyQSIGlutamine--tRNA ligase6.1.1.180.464
1yw7A41Methionine aminopeptidase 2/0.464
3fr4F8AFatty acid-binding protein, adipocyte/0.464
4a7zAY9Aldos-2-ulose dehydratase/0.464
1a26CNAPoly [ADP-ribose] polymerase 12.4.2.300.462
3pkdY10Methionine aminopeptidase 2/0.461
1kyvRBF6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.458
1yw9A84Methionine aminopeptidase 2/0.458
1kyxCRM6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.454
5kf2ACOPredicted acetyltransferase/0.454
1dgfNDPCatalase1.11.1.60.453
1y2bDEEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.453
2qw8NAPEugenol synthase 11.1.1.3180.453
3rykTYDdTDP-4-dehydrorhamnose 3,5-epimerase/0.453
5ebuFMNLactate oxidase/0.452
1touB1VFatty acid-binding protein, adipocyte/0.451
2qt0NNRNicotinamide riboside kinase 1/0.450
3c49KU8Poly [ADP-ribose] polymerase 32.4.2.300.450
4j7hTRHPCZA361.3/0.450
2geuCOKPantothenate kinase2.7.1.330.449
2q94A04Methionine aminopeptidase/0.449
3junAJDPhenazine biosynthesis protein A/B/0.449
1e6zNGOChitinase/0.448
2idvM7GEukaryotic translation initiation factor 4E-1/0.448
4jxxATPGlutamine--tRNA ligase6.1.1.180.448
1gtrATPGlutamine--tRNA ligase6.1.1.180.447
1udtVIAcGMP-specific 3',5'-cyclic phosphodiesterase/0.447
2z4w749Geranylgeranyl pyrophosphate synthase/0.447
3elbC5PEthanolamine-phosphate cytidylyltransferase2.7.7.140.447
2ea4F79Methionine aminopeptidase 2/0.446
4i101BSBeta-secretase 13.4.23.460.446
1vhnFMNtRNA-dihydrouridine synthase/0.445
2xb8XNW3-dehydroquinate dehydratase4.2.1.100.445
5kf9ACOPredicted acetyltransferase/0.445
1zisINI6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.444
2q92B23Methionine aminopeptidase/0.444
4i6h1C8Serine/threonine-protein kinase PLK22.7.11.210.444
1qruATPGlutamine--tRNA ligase6.1.1.180.443
1tojHCIAspartate aminotransferase2.6.1.10.443
2ouu35GcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.443
5liu388Aldo-keto reductase family 1 member B101.1.10.443
1towCRZFatty acid-binding protein, adipocyte/0.442
2d2gDZZPhosphotriesterase/0.442
2gg0U11Methionine aminopeptidase/0.442
2q93B21Methionine aminopeptidase/0.442
2zs8ADPPantothenate kinase2.7.1.330.442
4dya0MFNucleoprotein/0.442
5k8bPDG8-amino-3,8-dideoxy-alpha-D-manno-octulosonate transaminase/0.442
1nqw5YL6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.441
3tqxPLP2-amino-3-ketobutyrate coenzyme A ligase/0.441
4bfd8T3Beta-secretase 13.4.23.460.441
4tnzTTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.441
5ero210Fusicoccadiene synthase2.5.1.290.441
2c6c24IGlutamate carboxypeptidase 23.4.17.210.440
2z52H23Geranylgeranyl pyrophosphate synthase/0.440
3jsiWTCHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
5kf8ACOPredicted acetyltransferase/0.440