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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites 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
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
3tnfGNPRas-related protein Rab-8A

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3tnfGNPRas-related protein Rab-8A/1.000
1yhnGTPRas-related protein Rab-7a/0.575
1yzqGNPRas-related protein Rab-6A/0.564
3e5hGNPRas-related protein Rab-28/0.557
3bbpGTPRas-related protein Rab-6A/0.526
3lawGNPRas-related protein Rab-7a/0.525
3a6pGTPGTP-binding nuclear protein Ran/0.524
3lbnGNPGTPase HRas/0.522
2gilGTPRas-related protein Rab-6A/0.520
2ffqGSPRas-related protein Rab-6B/0.519
4cymGCPRas-related protein Rab-32/0.514
1zbdGTPRas-related protein Rab-3A/0.512
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.508
3a58GNPGTP-binding protein RHO1/0.508
3tsoGNPRas-related protein Rab-25/0.508
1kmqGNPTransforming protein RhoA/0.499
4lhwGNPRas-related protein Rab-8A/0.498
5dhaGNPGTP-binding nuclear protein Ran/0.496
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.494
1t91GTPRas-related protein Rab-7a/0.493
3w3zGTPGTP-binding nuclear protein Ran/0.493
4k81GTPGTPase HRas/0.490
1e96GTPRas-related C3 botulinum toxin substrate 1/0.489
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.489
4xoiGTPTransforming protein RhoA/0.489
4nyjGNPGTPase HRas/0.488
3oesGNPGTPase RhebL1/0.485
2fe4GDPRas-related protein Rab-6B/0.484
1g17GNPRas-related protein SEC4/0.483
1xtrGNPGTP-binding protein Rheb/0.482
3ea5GDPGTP-binding nuclear protein Ran/0.482
3nbzGTPGTP-binding nuclear protein Ran/0.482
1vg8GNPRas-related protein Rab-7a/0.481
4o25GTPGTP-binding protein Rheb/0.480
3tklGTPRas-related protein Rab-1A/0.476
5jljGNPGTP-binding nuclear protein Ran/0.476
4ol0GTPGTP-binding nuclear protein Ran/0.474
3ddcGNPGTPase HRas/0.473
4js0GNPCell division control protein 42 homolog/0.473
1zc4GNPRas-related protein Ral-A/0.472
2zetGTPRas-related protein Rab-27B/0.470
3i3sGNPGTPase HRas/0.469
3kz1GSPTransforming protein RhoA/0.467
1xtsGTPGTP-binding protein Rheb/0.465
2gcpGSPRho-related GTP-binding protein RhoC/0.464
2clsGTPRho-related GTP-binding protein Rho6/0.463
4dlwGNPGTPase HRas/0.462
3bc1GNPRas-related protein Rab-27A/0.459
3rabGNPRas-related protein Rab-3A/0.457
4mitGTPRho-related protein racC/0.457
5b2zGNPGTPase HRas/0.457
3rs5GNPGTPase HRas/0.455
4nyiGNPGTPase HRas/0.455
1cxzGSPTransforming protein RhoA/0.454
3oivGNPGTPase HRas/0.454
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.454
3v4fGNPGTPase HRas/0.454
3eg5GNPCell division control protein 42 homolog/0.453
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.453
2rgeGNPGTPase HRas/0.452
3kucGDPRas-related protein Rap-1A/0.451
4qxaGTPRas-related protein Rab-9A/0.451
2rgcGNPGTPase HRas/0.449
3rs7GNPGTPase HRas/0.449
3mhpFADFerredoxin--NADP reductase, leaf isozyme, chloroplastic1.18.1.20.448
1m7bGTPRho-related GTP-binding protein RhoE/0.447
4dltGNPGTPase HRas/0.444
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.441
4kvgGTPRas-related protein Rap-1A/0.441