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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
3sbeGNPRas-related C3 botulinum toxin substrate 1

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3sbeGNPRas-related C3 botulinum toxin substrate 1/1.000
4mitGTPRho-related protein racC/0.610
3i3sGNPGTPase HRas/0.548
3lbnGNPGTPase HRas/0.543
5b2zGNPGTPase HRas/0.543
1s1cGNPTransforming protein RhoA/0.531
3oivGNPGTPase HRas/0.529
5dhaGNPGTP-binding nuclear protein Ran/0.527
4lhwGNPRas-related protein Rab-8A/0.523
1kmqGNPTransforming protein RhoA/0.521
3kz1GSPTransforming protein RhoA/0.520
3rabGNPRas-related protein Rab-3A/0.520
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.518
1cxzGSPTransforming protein RhoA/0.516
3v4fGNPGTPase HRas/0.516
4dltGNPGTPase HRas/0.515
3rs7GNPGTPase HRas/0.513
1e96GTPRas-related C3 botulinum toxin substrate 1/0.511
3eg5GNPCell division control protein 42 homolog/0.508
1zc4GNPRas-related protein Ral-A/0.506
3oiuGNPGTPase HRas/0.504
1zc3GNPRas-related protein Ral-A/0.499
1xtsGTPGTP-binding protein Rheb/0.496
5jljGNPGTP-binding nuclear protein Ran/0.495
1m7bGTPRho-related GTP-binding protein RhoE/0.493
3a6pGTPGTP-binding nuclear protein Ran/0.492
4cymGCPRas-related protein Rab-32/0.490
2zetGTPRas-related protein Rab-27B/0.487
5hpyGDPTransforming protein RhoA/0.487
2c5lGTPGTPase HRas/0.486
3rs5GNPGTPase HRas/0.486
1yzqGNPRas-related protein Rab-6A/0.479
1zd9GDPADP-ribosylation factor-like protein 8A/0.479
4gzmGSPRas-related C3 botulinum toxin substrate 1/0.479
4nyiGNPGTPase HRas/0.479
3ea5GDPGTP-binding nuclear protein Ran/0.478
4kvgGTPRas-related protein Rap-1A/0.478
4dlwGNPGTPase HRas/0.476
2gcpGSPRho-related GTP-binding protein RhoC/0.474
3kucGDPRas-related protein Rap-1A/0.474
3nbzGTPGTP-binding nuclear protein Ran/0.474
1xtrGNPGTP-binding protein Rheb/0.473
3ddcGNPGTPase HRas/0.473
4js0GNPCell division control protein 42 homolog/0.473
1ibrGNPGTP-binding nuclear protein Ran/0.472
2gilGTPRas-related protein Rab-6A/0.472
3kkoGNPRas-related protein M-Ras/0.472
3tnfGNPRas-related protein Rab-8A/0.472
1g17GNPRas-related protein SEC4/0.471
3bbpGTPRas-related protein Rab-6A/0.471
2clsGTPRho-related GTP-binding protein Rho6/0.470
3a58GNPGTP-binding protein RHO1/0.468
2rgcGNPGTPase HRas/0.461
1oixGDPRas-related protein Rab-11A/0.460
3w3zGTPGTP-binding nuclear protein Ran/0.460
2rgbGNPGTPase HRas/0.459
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.458
3pitGNPRas-related protein M-Ras/0.455
3wyfGTPGTP-binding nuclear protein/0.455
4g0nGNPGTPase HRas/0.455
1z2cGNPRho-related GTP-binding protein RhoC/0.454
4o25GTPGTP-binding protein Rheb/0.454
4qxaGTPRas-related protein Rab-9A/0.451
4gzlGNPRas-related C3 botulinum toxin substrate 1/0.450
1uadGNPRas-related protein Ral-A/0.448
3lbhGNPGTPase HRas/0.448
1zbdGTPRas-related protein Rab-3A/0.447
3oesGNPGTPase RhebL1/0.447
3e5hGNPRas-related protein Rab-28/0.446
3tklGTPRas-related protein Rab-1A/0.445
3rs0GNPGTPase HRas/0.443
1vg8GNPRas-related protein Rab-7a/0.442
1yhnGTPRas-related protein Rab-7a/0.442
3x1zGNPRas-related protein Rap-1b/0.441
4nyjGNPGTPase HRas/0.440