Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
3kkqGDPRas-related protein M-Ras

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3kkqGDPRas-related protein M-Ras/1.000
4lpkGDPGTPase KRas/0.616
4tq9GDPGTPase KRas/0.610
4hdqGNPRas-related protein Rap-1b/0.598
2rggGNPGTPase HRas/0.595
3tgpGNPGTPase HRas/0.579
3k9lGNPGTPase HRas/0.574
1x1rGDPRas-related protein M-Ras/0.573
2fe4GDPRas-related protein Rab-6B/0.573
4lv6GDPGTPase KRas/0.571
3kkoGNPRas-related protein M-Ras/0.570
4l9sGDPGTPase HRas/0.570
4obeGDPGTPase KRas/0.568
4xvqGNPGTPase HRas/0.565
4xvrGNPGTPase HRas/0.564
2ce2GDPGTPase HRas/0.563
4epxGDPGTPase KRas/0.563
4q02GDPGTPase KRas/0.563
3pitGNPRas-related protein M-Ras/0.562
4l8gGDPGTPase KRas/0.561
2fg5GNPRas-related protein Rab-31/0.559
4ldjGDPGTPase KRas/0.556
4ql3GDPGTPase KRas/0.552
1n6lGTPRas-related protein Rab-5A/0.551
4epwGDPGTPase KRas/0.548
3qbtGNPRas-related protein Rab-8A/0.543
1yu9GNPRas-related protein Rab-4A/0.542
4wa7GDPGTPase KRas/0.540
4o2rGDPGTP-binding protein Rheb/0.538
4q03GDPGTPase KRas/0.537
3ddcGNPGTPase HRas/0.536
4lrwGDPGTPase KRas/0.533
3x1wGDPRas-related protein Rap-1b/0.532
1lfdGNPGTPase HRas/0.531
2c5lGTPGTPase HRas/0.530
1zd9GDPADP-ribosylation factor-like protein 8A/0.525
4g0nGNPGTPase HRas/0.521
4dlsGNPGTPase HRas/0.518
4dsnGCPGTPase KRas/0.517
3cphGDPRas-related protein SEC4/0.516
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.514
3rs4GNPGTPase HRas/0.513
3x1zGNPRas-related protein Rap-1b/0.511
2rgbGNPGTPase HRas/0.509
3oiwGNPGTPase HRas/0.507
3rs7GNPGTPase HRas/0.506
3v4fGNPGTPase HRas/0.506
2mscGDPMHC class I alpha chain/0.505
4dlzGNPGTPase HRas/0.502
4uj3GNPRas-related protein Rab-11A/0.499
3i3sGNPGTPase HRas/0.498
2p2lGDPRas-related C3 botulinum toxin substrate 1/0.497
1z2aGDPRas-related protein Rab-23/0.496
3lbnGNPGTPase HRas/0.495
4nyjGNPGTPase HRas/0.495
5dhaGNPGTP-binding nuclear protein Ran/0.495
1d5cGDPGTPase (Rab6)/0.494
2rgeGNPGTPase HRas/0.494
3lbhGNPGTPase HRas/0.494
1oixGDPRas-related protein Rab-11A/0.491
3l8yGNPGTPase HRas/0.491
2cl6CAGGTPase HRas/0.490
3kudGDPGTPase HRas/0.490
4dltGNPGTPase HRas/0.490
3oivGNPGTPase HRas/0.488
5difGNPGTP-binding nuclear protein Ran/0.488
1zbdGTPRas-related protein Rab-3A/0.487
2rgcGNPGTPase HRas/0.487
5b2zGNPGTPase HRas/0.486
4qxaGTPRas-related protein Rab-9A/0.485
2bmeGNPRas-related protein Rab-4A/0.483
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.483
3kucGDPRas-related protein Rap-1A/0.483
3k8yGNPGTPase HRas/0.482
1zc4GNPRas-related protein Ral-A/0.481
3rs0GNPGTPase HRas/0.480
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.480
4rkfGNPRas-related protein Rab-3/0.479
1a2bGSPTransforming protein RhoA/0.476
2msdGNPMHC class I alpha chain/0.476
3vhxGTPADP-ribosylation factor 6/0.476
3a58GNPGTP-binding protein RHO1/0.474
3ewsADPATP-dependent RNA helicase DDX19B3.6.4.130.474
3mohGDPPhosphoenolpyruvate carboxykinase, cytosolic [GTP]4.1.1.320.473
3rslGNPGTPase HRas/0.473
4dlxGNPGTPase HRas/0.473
1tu3GNPRas-related protein Rab-5A/0.472
5jljGNPGTP-binding nuclear protein Ran/0.472
1kmqGNPTransforming protein RhoA/0.470
2q3fGNPRas-related GTP-binding protein D/0.469
3oesGNPGTPase RhebL1/0.469
4cidANPEH domain-containing protein 2/0.469
1e96GTPRas-related C3 botulinum toxin substrate 1/0.467
1m7bGTPRho-related GTP-binding protein RhoE/0.467
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.467
2qf2GDPPhosphoenolpyruvate carboxykinase, cytosolic [GTP]4.1.1.320.467
3e5hGNPRas-related protein Rab-28/0.467
1g17GNPRas-related protein SEC4/0.466
1v8kANPKinesin-like protein KIF2C/0.466
2ffqGSPRas-related protein Rab-6B/0.466
3bbpGTPRas-related protein Rab-6A/0.464
3lbiGNPGTPase HRas/0.464
4paoGSPGuanine nucleotide-binding protein G(i) subunit alpha-1/0.462
3a6pGTPGTP-binding nuclear protein Ran/0.461
1t91GTPRas-related protein Rab-7a/0.459
2gcpGSPRho-related GTP-binding protein RhoC/0.459
4l9wGNPGTPase HRas/0.459
4o2lGTPGTP-binding protein Rheb/0.457
2ic5GDPRas-related C3 botulinum toxin substrate 3/0.456
1ky2GNPGTP-binding protein YPT7/0.455
4mitGTPRho-related protein racC/0.455
4o25GTPGTP-binding protein Rheb/0.455
1uxnNAPNAD(P)-dependent glyceraldehyde-3-phosphate dehydrogenase/0.454
4dsoGSPGTPase KRas/0.454
1culGSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.453
3pcrGTPADP-ribosylation factor 6/0.453
4hdoGNPRas-related protein Rap-1b/0.453
1rx4DDFDihydrofolate reductase1.5.1.30.452
1a4rGNHCell division control protein 42 homolog/0.451
2mseGNPMHC class I alpha chain/0.450
2yg4FADPutrescine oxidase/0.450
4dlvGNPGTPase HRas/0.450
4oe4NADDelta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial1.2.1.880.449
5hpyGDPTransforming protein RhoA/0.449
1vg8GNPRas-related protein Rab-7a/0.447
2bkuGTPGTP-binding nuclear protein Ran/0.446
1e0jANPDNA primase/helicase2.7.70.445
2npiATPmRNA cleavage and polyadenylation factor CLP1/0.443
3kz1GSPTransforming protein RhoA/0.443
1k5dGNPGTP-binding nuclear protein Ran/0.442
1pd9CO4Dihydrofolate reductase1.5.1.30.442
2a0wDIHPurine nucleoside phosphorylase2.4.2.10.442
3eg5GNPCell division control protein 42 homolog/0.442
4kvgGTPRas-related protein Rap-1A/0.442
1g16GDPRas-related protein SEC4/0.441
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.441
3k7mFAD6-hydroxy-L-nicotine oxidase/0.441
1pq944BOxysterols receptor LXR-beta/0.440
2w3bNDPDihydrofolate reductase1.5.1.30.440
3ch6311Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.440