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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
4dsoGSPGTPase KRas

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
4dsoGSPGTPase KRas/1.000
4dsuGDPGTPase KRas/0.623
4nyjGNPGTPase HRas/0.604
1zc3GNPRas-related protein Ral-A/0.601
3e5hGNPRas-related protein Rab-28/0.600
1zc4GNPRas-related protein Ral-A/0.596
1g17GNPRas-related protein SEC4/0.593
3oiuGNPGTPase HRas/0.592
4nyiGNPGTPase HRas/0.589
1kmqGNPTransforming protein RhoA/0.587
1yzqGNPRas-related protein Rab-6A/0.587
1cxzGSPTransforming protein RhoA/0.586
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.580
2gcpGSPRho-related GTP-binding protein RhoC/0.578
3a58GNPGTP-binding protein RHO1/0.577
3oivGNPGTPase HRas/0.576
5dhaGNPGTP-binding nuclear protein Ran/0.576
1ibrGNPGTP-binding nuclear protein Ran/0.575
4dlwGNPGTPase HRas/0.573
3w3zGTPGTP-binding nuclear protein Ran/0.569
3rs5GNPGTPase HRas/0.567
3i3sGNPGTPase HRas/0.566
3oesGNPGTPase RhebL1/0.565
5jljGNPGTP-binding nuclear protein Ran/0.565
3eg5GNPCell division control protein 42 homolog/0.564
3bbpGTPRas-related protein Rab-6A/0.561
3kz1GSPTransforming protein RhoA/0.561
1xtsGTPGTP-binding protein Rheb/0.558
5b2zGNPGTPase HRas/0.555
3ddcGNPGTPase HRas/0.551
4dltGNPGTPase HRas/0.551
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.549
4o25GTPGTP-binding protein Rheb/0.549
1t91GTPRas-related protein Rab-7a/0.547
2zetGTPRas-related protein Rab-27B/0.547
3bc1GNPRas-related protein Rab-27A/0.545
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.543
4js0GNPCell division control protein 42 homolog/0.543
3th5GNPRas-related C3 botulinum toxin substrate 1/0.542
4kvgGTPRas-related protein Rap-1A/0.542
3v4fGNPGTPase HRas/0.541
1yhnGTPRas-related protein Rab-7a/0.535
2ffqGSPRas-related protein Rab-6B/0.535
3lbnGNPGTPase HRas/0.533
1z2cGNPRho-related GTP-binding protein RhoC/0.530
3rabGNPRas-related protein Rab-3A/0.529
1vg8GNPRas-related protein Rab-7a/0.528
4rkfGNPRas-related protein Rab-3/0.528
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.525
1xtrGNPGTP-binding protein Rheb/0.523
1zbdGTPRas-related protein Rab-3A/0.521
3kucGDPRas-related protein Rap-1A/0.520
1m7bGTPRho-related GTP-binding protein RhoE/0.519
3kudGDPGTPase HRas/0.517
3nbzGTPGTP-binding nuclear protein Ran/0.515
3rs7GNPGTPase HRas/0.515
4dxaGSPRas-related protein Rap-1b/0.515
4mitGTPRho-related protein racC/0.515
4xoiGTPTransforming protein RhoA/0.515
2bkuGTPGTP-binding nuclear protein Ran/0.512
4gzlGNPRas-related C3 botulinum toxin substrate 1/0.511
3tsoGNPRas-related protein Rab-25/0.509
3a6pGTPGTP-binding nuclear protein Ran/0.505
3ea5GDPGTP-binding nuclear protein Ran/0.504
1uadGNPRas-related protein Ral-A/0.503
1a2bGSPTransforming protein RhoA/0.502
3x1wGDPRas-related protein Rap-1b/0.502
3tklGTPRas-related protein Rab-1A/0.499
1s1cGNPTransforming protein RhoA/0.496
1lfdGNPGTPase HRas/0.495
2cl6CAGGTPase HRas/0.495
2clsGTPRho-related GTP-binding protein Rho6/0.495
1e96GTPRas-related C3 botulinum toxin substrate 1/0.494
2c5lGTPGTPase HRas/0.494
4hdoGNPRas-related protein Rap-1b/0.494
1gwnGTPRho-related GTP-binding protein RhoE/0.493
4dlxGNPGTPase HRas/0.490
2rgbGNPGTPase HRas/0.489
2gilGTPRas-related protein Rab-6A/0.488
4dsnGCPGTPase KRas/0.482
5hpyGDPTransforming protein RhoA/0.482
2rgeGNPGTPase HRas/0.480
4dlzGNPGTPase HRas/0.480
4lhwGNPRas-related protein Rab-8A/0.478
2msdGNPMHC class I alpha chain/0.477
3lawGNPRas-related protein Rab-7a/0.477
2rgcGNPGTPase HRas/0.476
4l9wGNPGTPase HRas/0.476
4dlvGNPGTPase HRas/0.474
1k5dGNPGTP-binding nuclear protein Ran/0.473
2l0xGDPGTP-binding protein Rheb/0.472
3l8yGNPGTPase HRas/0.469
3rslGNPGTPase HRas/0.469
3lbhGNPGTPase HRas/0.468
1ow3GDPTransforming protein RhoA/0.465
3kkoGNPRas-related protein M-Ras/0.465
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.465
3pitGNPRas-related protein M-Ras/0.464
4gzmGSPRas-related C3 botulinum toxin substrate 1/0.464
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.463
3naxMP73-phosphoinositide-dependent protein kinase 12.7.11.10.459
3oiwGNPGTPase HRas/0.459
4dlsGNPGTPase HRas/0.459
4g0nGNPGTPase HRas/0.455
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.454
3qbtGNPRas-related protein Rab-8A/0.454
5difGNPGTP-binding nuclear protein Ran/0.454
3rs0GNPGTPase HRas/0.453
3x1zGNPRas-related protein Rap-1b/0.453
2zi63D1Deoxycytidine kinase2.7.1.740.452
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.452
4uj3GNPRas-related protein Rab-11A/0.451
4qxaGTPRas-related protein Rab-9A/0.449
4lv6GDPGTPase KRas/0.448
4obeGDPGTPase KRas/0.448
3k8yGNPGTPase HRas/0.447
1oixGDPRas-related protein Rab-11A/0.446
4fdpFADDecaprenylphosphoryl-beta-D-ribose oxidase/0.444
4ql3GDPGTPase KRas/0.444
1z0aGDPRas-related protein Rab-2A/0.443
1khrVIRStreptogramin A acetyltransferase2.3.10.442
3rs4GNPGTPase HRas/0.442
4l9sGDPGTPase HRas/0.442
1ezvSMACytochrome b/0.441
2gvdGSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.441
2v59LZKBiotin carboxylase6.3.4.140.441
3irn1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.441
3nwlNDPCatalase1.11.1.60.441
4uj5GNPRas-related protein Rab-11A/0.441
2ycyP32Beta-1 adrenergic receptor/0.441
2ociTYCValacyclovir hydrolase3.10.440