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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
2rgcGNPGTPase HRas

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2rgcGNPGTPase HRas/1.000
4dlxGNPGTPase HRas/0.827
2rgeGNPGTPase HRas/0.815
4dlzGNPGTPase HRas/0.803
4dlvGNPGTPase HRas/0.783
2rgbGNPGTPase HRas/0.777
3rs0GNPGTPase HRas/0.771
3rs5GNPGTPase HRas/0.758
3oivGNPGTPase HRas/0.753
3lbnGNPGTPase HRas/0.737
3rslGNPGTPase HRas/0.702
3v4fGNPGTPase HRas/0.702
4dlwGNPGTPase HRas/0.687
3rs7GNPGTPase HRas/0.674
3k8yGNPGTPase HRas/0.673
2c5lGTPGTPase HRas/0.671
3ddcGNPGTPase HRas/0.661
3l8yGNPGTPase HRas/0.627
3oiuGNPGTPase HRas/0.626
3kkoGNPRas-related protein M-Ras/0.625
4nyiGNPGTPase HRas/0.623
3a6pGTPGTP-binding nuclear protein Ran/0.619
3i3sGNPGTPase HRas/0.616
1e96GTPRas-related C3 botulinum toxin substrate 1/0.614
3pitGNPRas-related protein M-Ras/0.613
3x1zGNPRas-related protein Rap-1b/0.610
4dlsGNPGTPase HRas/0.605
3oiwGNPGTPase HRas/0.604
5b2zGNPGTPase HRas/0.604
3kucGDPRas-related protein Rap-1A/0.600
4nyjGNPGTPase HRas/0.600
4hdoGNPRas-related protein Rap-1b/0.599
3lbhGNPGTPase HRas/0.598
3w3zGTPGTP-binding nuclear protein Ran/0.596
4dltGNPGTPase HRas/0.595
4dsnGCPGTPase KRas/0.595
3oesGNPGTPase RhebL1/0.594
3rs4GNPGTPase HRas/0.587
4g0nGNPGTPase HRas/0.585
4l9wGNPGTPase HRas/0.585
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.584
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.576
3kudGDPGTPase HRas/0.572
4rkfGNPRas-related protein Rab-3/0.572
3e5hGNPRas-related protein Rab-28/0.570
4hdqGNPRas-related protein Rap-1b/0.570
1t91GTPRas-related protein Rab-7a/0.565
1zc4GNPRas-related protein Ral-A/0.565
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.565
4mitGTPRho-related protein racC/0.565
4lhwGNPRas-related protein Rab-8A/0.563
1xtrGNPGTP-binding protein Rheb/0.561
1m7bGTPRho-related GTP-binding protein RhoE/0.560
1xtsGTPGTP-binding protein Rheb/0.560
4tq9GDPGTPase KRas/0.558
1kmqGNPTransforming protein RhoA/0.555
4xvqGNPGTPase HRas/0.555
1yzqGNPRas-related protein Rab-6A/0.552
2fe4GDPRas-related protein Rab-6B/0.551
4l9sGDPGTPase HRas/0.549
3ea5GDPGTP-binding nuclear protein Ran/0.547
1ibrGNPGTP-binding nuclear protein Ran/0.545
3rabGNPRas-related protein Rab-3A/0.544
1a2bGSPTransforming protein RhoA/0.543
3bbpGTPRas-related protein Rab-6A/0.543
5difGNPGTP-binding nuclear protein Ran/0.542
3tsoGNPRas-related protein Rab-25/0.539
1zbdGTPRas-related protein Rab-3A/0.538
2bkuGTPGTP-binding nuclear protein Ran/0.538
4xvrGNPGTPase HRas/0.537
1cxzGSPTransforming protein RhoA/0.536
1g17GNPRas-related protein SEC4/0.534
3lbiGNPGTPase HRas/0.534
5jljGNPGTP-binding nuclear protein Ran/0.532
4kvgGTPRas-related protein Rap-1A/0.531
1yhnGTPRas-related protein Rab-7a/0.530
4l8gGDPGTPase KRas/0.529
4o25GTPGTP-binding protein Rheb/0.529
3nbzGTPGTP-binding nuclear protein Ran/0.528
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.527
4lv6GDPGTPase KRas/0.526
1lfdGNPGTPase HRas/0.525
4js0GNPCell division control protein 42 homolog/0.525
5dhaGNPGTP-binding nuclear protein Ran/0.525
1zd9GDPADP-ribosylation factor-like protein 8A/0.524
3tgpGNPGTPase HRas/0.523
4ol0GTPGTP-binding nuclear protein Ran/0.522
3a58GNPGTP-binding protein RHO1/0.521
4obeGDPGTPase KRas/0.521
1vg8GNPRas-related protein Rab-7a/0.519
2ce2GDPGTPase HRas/0.517
2gcpGSPRho-related GTP-binding protein RhoC/0.517
4epxGDPGTPase KRas/0.514
1yu9GNPRas-related protein Rab-4A/0.512
4o2lGTPGTP-binding protein Rheb/0.512
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.511
2msdGNPMHC class I alpha chain/0.511
4dxaGSPRas-related protein Rap-1b/0.511
4wa7GDPGTPase KRas/0.510
3wyfGTPGTP-binding nuclear protein/0.509
4dsoGSPGTPase KRas/0.509
4ql3GDPGTPase KRas/0.508
4qxaGTPRas-related protein Rab-9A/0.508
3bc1GNPRas-related protein Rab-27A/0.507
4q03GDPGTPase KRas/0.507
3cphGDPRas-related protein SEC4/0.505
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.504
3kkqGDPRas-related protein M-Ras/0.502
4epwGDPGTPase KRas/0.500
2ffqGSPRas-related protein Rab-6B/0.496
2gilGTPRas-related protein Rab-6A/0.495
4gzlGNPRas-related C3 botulinum toxin substrate 1/0.493
1gwnGTPRho-related GTP-binding protein RhoE/0.492
2rggGNPGTPase HRas/0.492
4ldjGDPGTPase KRas/0.489
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.487
3tklGTPRas-related protein Rab-1A/0.487
1k5dGNPGTP-binding nuclear protein Ran/0.485
1z0dGDPRas-related protein Rab-5C/0.485
3eg5GNPCell division control protein 42 homolog/0.485
1n6lGTPRas-related protein Rab-5A/0.484
4lpkGDPGTPase KRas/0.483
3kz1GSPTransforming protein RhoA/0.480
3th5GNPRas-related C3 botulinum toxin substrate 1/0.480
1oixGDPRas-related protein Rab-11A/0.479
2fg5GNPRas-related protein Rab-31/0.479
2cl6CAGGTPase HRas/0.475
4q02GDPGTPase KRas/0.475
1uadGNPRas-related protein Ral-A/0.471
1z2aGDPRas-related protein Rab-23/0.471
5hpyGDPTransforming protein RhoA/0.469
3qbtGNPRas-related protein Rab-8A/0.468
4cidANPEH domain-containing protein 2/0.467
1d5cGDPGTPase (Rab6)/0.466
1x1rGDPRas-related protein M-Ras/0.466
4o2rGDPGTP-binding protein Rheb/0.465
2mscGDPMHC class I alpha chain/0.463
3x1wGDPRas-related protein Rap-1b/0.463
2clsGTPRho-related GTP-binding protein Rho6/0.461
2p2lGDPRas-related C3 botulinum toxin substrate 1/0.459
3k9lGNPGTPase HRas/0.457
3w0c6DSVitamin D3 receptor/0.453
2gvdFKPAdenylate cyclase type 2/0.452
2gvdFKPAdenylate cyclase type 5/0.452
5iqgGDPBifunctional AAC/APH2.3.10.452
4panGDPGuanine nucleotide-binding protein G(i) subunit alpha-1/0.451
4ai8DZAHypoxia-inducible factor 1-alpha inhibitor1.14.11.300.450
1g16GDPRas-related protein SEC4/0.449
1ow3GDPTransforming protein RhoA/0.449
4lrwGDPGTPase KRas/0.448
2mseGNPMHC class I alpha chain/0.447
3c14FOKAdenylate cyclase type 2/0.447
3c14FOKAdenylate cyclase type 5/0.447
4gzmGSPRas-related C3 botulinum toxin substrate 1/0.447
4uj3GNPRas-related protein Rab-11A/0.447
3gy9COAGCN5-related N-acetyltransferase/0.444
4d0lGSPRas-related protein Rab-11A/0.444
2z9dFMNFMN-dependent NADH-azoreductase/0.443
1db1VDXVitamin D3 receptor/0.441
1z2cGNPRho-related GTP-binding protein RhoC/0.441
2bmeGNPRas-related protein Rab-4A/0.441
3pqbVGPPutative oxidoreductase/0.440
3w0aDS5Vitamin D3 receptor/0.440