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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
3h98B5PGenome polyprotein2.7.7.48

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3h98B5PGenome polyprotein2.7.7.481.000
3cwj321Genome polyprotein2.7.7.480.729
3h5sH5SGenome polyprotein2.7.7.480.667
4ih71ERGenome polyprotein2.7.7.480.667
3h5uH5UGenome polyprotein2.7.7.480.657
3cdeN3HGenome polyprotein2.7.7.480.656
3golXNDGenome polyprotein2.7.7.480.645
3co93MSGenome polyprotein2.7.7.480.640
3h2lYAKGenome polyprotein2.7.7.480.638
2fvc888Polyprotein/0.637
4iz02BIGenome polyprotein2.7.7.480.633
3g86T18Genome polyprotein2.7.7.480.631
3bsa1PDGenome polyprotein2.7.7.480.630
4mk828QGenome polyprotein2.7.7.480.630
3u4o08EGenome polyprotein2.7.7.480.620
3upi0C2Genome polyprotein2.7.7.480.620
4mk728OGenome polyprotein2.7.7.480.619
3uph0C1Genome polyprotein2.7.7.480.617
3cvkN34Genome polyprotein2.7.7.480.610
4eaw0NQGenome polyprotein2.7.7.480.610
1z4uPH9Polyprotein/0.606
3d5m4MSGenome polyprotein2.7.7.480.603
3csoXNIGenome polyprotein2.7.7.480.602
3hkyIX6Genome polyprotein2.7.7.480.598
3ska053Genome polyprotein2.7.7.480.598
4ih61EPGenome polyprotein2.7.7.480.597
3e51N35Genome polyprotein2.7.7.480.592
3fqk79ZGenome polyprotein2.7.7.480.585
3h59H59Genome polyprotein2.7.7.480.583
3gnwXNCGenome polyprotein2.7.7.480.582
2gc8885Polyprotein/0.579
3gynB42Genome polyprotein2.7.7.480.565
2yoj8Y6Genome polyprotein2.7.7.480.561
3d28B34Genome polyprotein2.7.7.480.559
3bsc2PDGenome polyprotein2.7.7.480.557
3ske054Genome polyprotein2.7.7.480.549
3gnvXNZGenome polyprotein2.7.7.480.516
1yvfPH7Polyprotein/0.503
2qe5617Polyprotein/0.486
1xddAAYIntegrin alpha-L/0.466
1tehNADAlcohol dehydrogenase class-31.1.1.10.465
2f3rG5PGuanylate kinase2.7.4.80.465
1x1cSAHC-20 methyltransferase/0.463
1x27ASP_TYR_VAL_HIS_PTRTyrosine-protein kinase Lck2.7.10.20.462
2oapANPType II secretion system protein (GspE-2)/0.460
1o9bNAIQuinate/shikimate dehydrogenase/0.459
2ok7FADFerredoxin--NADP reductase, apicoplast/0.458
3pftFMNFlavin reductase/0.458
2aa3AP0L-lactate dehydrogenase/0.454
1lnmDTXBilin-binding protein/0.453
1ni4TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial1.2.4.10.453
1ni4TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial1.2.4.10.453
1toiHCIAspartate aminotransferase2.6.1.10.453
1towCRZFatty acid-binding protein, adipocyte/0.452
4blsAPCNTPase P4/0.452
1u1gBBBUridine phosphorylase2.4.2.30.451
4i101BSBeta-secretase 13.4.23.460.451
4df2FMNNADPH dehydrogenase/0.450
1hdgNADGlyceraldehyde-3-phosphate dehydrogenase/0.448
1u1f183Uridine phosphorylase2.4.2.30.448
3qiyQI1Botulinum neurotoxin type A3.4.24.690.448
2xtnGTPGTPase IMAP family member 2/0.447
2pk3A2RGDP-6-deoxy-D-mannose reductase/0.446
3v0p4GWHisto-blood group ABO system transferase/0.446
3gkaFMNN-ethylmaleimide reductase/0.445
2x93X93Angiotensin-converting enzyme3.4.15.10.444
2zvbSAHPrecorrin-3 C17-methyltransferase/0.444
5dp2NAPCurF/0.444
1je1GMPPurine nucleoside phosphorylase/0.443
2imlFMNUncharacterized protein/0.443
3fr5I4AFatty acid-binding protein, adipocyte/0.443
3qgd26SGenome polyprotein2.7.7.480.443
3zmg6Z0Beta-secretase 13.4.23.460.443
4hbm0Y7E3 ubiquitin-protein ligase Mdm26.3.20.442
1ay0TPPTransketolase 12.2.1.10.441
2qbuSAHPrecorrin-2 methyltransferase/0.441
4brdANPEctonucleoside triphosphate diphosphohydrolase I/0.441
4j7hTRHPCZA361.3/0.441
1bduDURThymidylate synthase/0.440
1n95FTHProtein farnesyltransferase subunit beta2.5.1.580.440