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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
1e96GTPRas-related C3 botulinum toxin substrate 1

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
1e96GTPRas-related C3 botulinum toxin substrate 1/1.000
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.582
4mitGTPRho-related protein racC/0.553
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.546
3a58GNPGTP-binding protein RHO1/0.543
3v4fGNPGTPase HRas/0.538
3lbnGNPGTPase HRas/0.535
2c5lGTPGTPase HRas/0.533
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.530
2rgeGNPGTPase HRas/0.529
3w3zGTPGTP-binding nuclear protein Ran/0.528
2rgbGNPGTPase HRas/0.527
4nyjGNPGTPase HRas/0.526
1yzqGNPRas-related protein Rab-6A/0.525
1zbdGTPRas-related protein Rab-3A/0.525
3a6pGTPGTP-binding nuclear protein Ran/0.524
3kz1GSPTransforming protein RhoA/0.524
4nyiGNPGTPase HRas/0.524
4rkfGNPRas-related protein Rab-3/0.524
5dhaGNPGTP-binding nuclear protein Ran/0.523
3ddcGNPGTPase HRas/0.522
5difGNPGTP-binding nuclear protein Ran/0.522
2rgcGNPGTPase HRas/0.520
4lhwGNPRas-related protein Rab-8A/0.520
1t91GTPRas-related protein Rab-7a/0.519
1a2bGSPTransforming protein RhoA/0.518
1vg8GNPRas-related protein Rab-7a/0.518
3e5hGNPRas-related protein Rab-28/0.518
3oivGNPGTPase HRas/0.518
1xtsGTPGTP-binding protein Rheb/0.517
1yhnGTPRas-related protein Rab-7a/0.517
4dlwGNPGTPase HRas/0.516
4g0nGNPGTPase HRas/0.516
2fe4GDPRas-related protein Rab-6B/0.514
1g17GNPRas-related protein SEC4/0.513
3lbhGNPGTPase HRas/0.513
5hpyGDPTransforming protein RhoA/0.513
3kkoGNPRas-related protein M-Ras/0.512
4dltGNPGTPase HRas/0.512
3l8yGNPGTPase HRas/0.511
3oesGNPGTPase RhebL1/0.511
5b2zGNPGTPase HRas/0.511
1s1cGNPTransforming protein RhoA/0.510
3bbpGTPRas-related protein Rab-6A/0.510
3rs5GNPGTPase HRas/0.508
3oiwGNPGTPase HRas/0.505
4o25GTPGTP-binding protein Rheb/0.505
5jljGNPGTP-binding nuclear protein Ran/0.505
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.504
3pitGNPRas-related protein M-Ras/0.504
4dlxGNPGTPase HRas/0.504
3oiuGNPGTPase HRas/0.502
3rs0GNPGTPase HRas/0.501
1ibrGNPGTP-binding nuclear protein Ran/0.500
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.500
3rs7GNPGTPase HRas/0.500
4dlzGNPGTPase HRas/0.500
4hdoGNPRas-related protein Rap-1b/0.500
3tsoGNPRas-related protein Rab-25/0.494
3i3sGNPGTPase HRas/0.493
3rs4GNPGTPase HRas/0.493
3ea5GDPGTP-binding nuclear protein Ran/0.492
3kudGDPGTPase HRas/0.492
4js0GNPCell division control protein 42 homolog/0.492
3eg5GNPCell division control protein 42 homolog/0.491
3lbiGNPGTPase HRas/0.489
2bkuGTPGTP-binding nuclear protein Ran/0.488
1k5dGNPGTP-binding nuclear protein Ran/0.487
3kucGDPRas-related protein Rap-1A/0.487
4dsnGCPGTPase KRas/0.486
3rslGNPGTPase HRas/0.484
1zc4GNPRas-related protein Ral-A/0.482
1zd9GDPADP-ribosylation factor-like protein 8A/0.481
3k8yGNPGTPase HRas/0.481
1z2cGNPRho-related GTP-binding protein RhoC/0.480
2ffqGSPRas-related protein Rab-6B/0.480
3x1zGNPRas-related protein Rap-1b/0.478
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.475
4dlsGNPGTPase HRas/0.474
4l9wGNPGTPase HRas/0.470
1zc3GNPRas-related protein Ral-A/0.468
4xoiGTPTransforming protein RhoA/0.466
4dlvGNPGTPase HRas/0.465
4qxaGTPRas-related protein Rab-9A/0.465
4xvqGNPGTPase HRas/0.465
3cphGDPRas-related protein SEC4/0.463
4gzlGNPRas-related C3 botulinum toxin substrate 1/0.461
4xvrGNPGTPase HRas/0.461
2clsGTPRho-related GTP-binding protein Rho6/0.458
2fg5GNPRas-related protein Rab-31/0.458
3wyfGTPGTP-binding nuclear protein/0.457
4hdqGNPRas-related protein Rap-1b/0.457
1gwnGTPRho-related GTP-binding protein RhoE/0.452
4o2lGTPGTP-binding protein Rheb/0.452
2p2lGDPRas-related C3 botulinum toxin substrate 1/0.450
1ow3GDPTransforming protein RhoA/0.449
3tklGTPRas-related protein Rab-1A/0.446
2rggGNPGTPase HRas/0.442
3tgpGNPGTPase HRas/0.442
1lfdGNPGTPase HRas/0.441
4o2rGDPGTP-binding protein Rheb/0.440