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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
3v4fGNPGTPase HRas

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3v4fGNPGTPase HRas/1.000
3lbnGNPGTPase HRas/0.767
3rs5GNPGTPase HRas/0.698
3oivGNPGTPase HRas/0.677
4dlwGNPGTPase HRas/0.640
3rs0GNPGTPase HRas/0.629
3oiuGNPGTPase HRas/0.619
5b2zGNPGTPase HRas/0.619
3i3sGNPGTPase HRas/0.618
4dltGNPGTPase HRas/0.587
4nyiGNPGTPase HRas/0.585
3ddcGNPGTPase HRas/0.580
4nyjGNPGTPase HRas/0.575
3rs7GNPGTPase HRas/0.572
2rgcGNPGTPase HRas/0.564
3rabGNPRas-related protein Rab-3A/0.560
4lhwGNPRas-related protein Rab-8A/0.559
3k8yGNPGTPase HRas/0.555
4mitGTPRho-related protein racC/0.551
2rgeGNPGTPase HRas/0.549
1zc4GNPRas-related protein Ral-A/0.548
2zetGTPRas-related protein Rab-27B/0.546
3kucGDPRas-related protein Rap-1A/0.545
4dlzGNPGTPase HRas/0.538
1ibrGNPGTP-binding nuclear protein Ran/0.535
3oesGNPGTPase RhebL1/0.535
4dlxGNPGTPase HRas/0.535
1zc3GNPRas-related protein Ral-A/0.534
4dlvGNPGTPase HRas/0.534
4dxaGSPRas-related protein Rap-1b/0.534
2c5lGTPGTPase HRas/0.533
4rkfGNPRas-related protein Rab-3/0.532
1xtrGNPGTP-binding protein Rheb/0.527
1kmqGNPTransforming protein RhoA/0.525
1yzqGNPRas-related protein Rab-6A/0.525
3l8yGNPGTPase HRas/0.524
1g17GNPRas-related protein SEC4/0.523
2rgbGNPGTPase HRas/0.523
1xtsGTPGTP-binding protein Rheb/0.521
3tsoGNPRas-related protein Rab-25/0.519
5jljGNPGTP-binding nuclear protein Ran/0.519
3e5hGNPRas-related protein Rab-28/0.518
4o25GTPGTP-binding protein Rheb/0.517
2cl6CAGGTPase HRas/0.516
4kvgGTPRas-related protein Rap-1A/0.515
1cxzGSPTransforming protein RhoA/0.512
4qxaGTPRas-related protein Rab-9A/0.512
3kkoGNPRas-related protein M-Ras/0.510
1zbdGTPRas-related protein Rab-3A/0.509
5hpyGDPTransforming protein RhoA/0.507
2gcpGSPRho-related GTP-binding protein RhoC/0.506
3rslGNPGTPase HRas/0.505
4g0nGNPGTPase HRas/0.505
1e96GTPRas-related C3 botulinum toxin substrate 1/0.503
1m7bGTPRho-related GTP-binding protein RhoE/0.502
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.502
3pitGNPRas-related protein M-Ras/0.499
1t91GTPRas-related protein Rab-7a/0.498
3nbzGTPGTP-binding nuclear protein Ran/0.498
4hdoGNPRas-related protein Rap-1b/0.497
4xoiGTPTransforming protein RhoA/0.494
5dhaGNPGTP-binding nuclear protein Ran/0.491
1ow3GDPTransforming protein RhoA/0.489
3ea5GDPGTP-binding nuclear protein Ran/0.489
1s1cGNPTransforming protein RhoA/0.488
1oixGDPRas-related protein Rab-11A/0.487
4uj3GNPRas-related protein Rab-11A/0.487
1lfdGNPGTPase HRas/0.486
3oiwGNPGTPase HRas/0.485
3bc1GNPRas-related protein Rab-27A/0.483
4dsnGCPGTPase KRas/0.483
3lbiGNPGTPase HRas/0.481
3tklGTPRas-related protein Rab-1A/0.481
3bbpGTPRas-related protein Rab-6A/0.480
4dsuGDPGTPase KRas/0.480
2clsGTPRho-related GTP-binding protein Rho6/0.479
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.479
3a6pGTPGTP-binding nuclear protein Ran/0.479
4js0GNPCell division control protein 42 homolog/0.479
3a58GNPGTP-binding protein RHO1/0.478
2gilGTPRas-related protein Rab-6A/0.476
3lbhGNPGTPase HRas/0.475
1uadGNPRas-related protein Ral-A/0.472
5c46GSPRas-related protein Rab-11A/0.472
1zd9GDPADP-ribosylation factor-like protein 8A/0.470
3kz1GSPTransforming protein RhoA/0.468
3qbtGNPRas-related protein Rab-8A/0.467
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.466
1yhnGTPRas-related protein Rab-7a/0.466
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.465
1z2cGNPRho-related GTP-binding protein RhoC/0.464
3w3zGTPGTP-binding nuclear protein Ran/0.464
4uj5GNPRas-related protein Rab-11A/0.464
4l9wGNPGTPase HRas/0.462
5difGNPGTP-binding nuclear protein Ran/0.460
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.459
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.459
2fe4GDPRas-related protein Rab-6B/0.457
1vg8GNPRas-related protein Rab-7a/0.456
3eg5GNPCell division control protein 42 homolog/0.455
4xvrGNPGTPase HRas/0.455
3kudGDPGTPase HRas/0.454
4tq9GDPGTPase KRas/0.451
3wyfGTPGTP-binding nuclear protein/0.450
1k5dGNPGTP-binding nuclear protein Ran/0.448
4dlsGNPGTPase HRas/0.448
4ol0GTPGTP-binding nuclear protein Ran/0.447
2ffqGSPRas-related protein Rab-6B/0.446
3rs4GNPGTPase HRas/0.446
4hdqGNPRas-related protein Rap-1b/0.444
2gvdGSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.440