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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
1yzqGNPRas-related protein Rab-6A

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1yzqGNPRas-related protein Rab-6A/1.000
2ffqGSPRas-related protein Rab-6B/0.628
1t91GTPRas-related protein Rab-7a/0.618
3e5hGNPRas-related protein Rab-28/0.612
2gilGTPRas-related protein Rab-6A/0.608
3bbpGTPRas-related protein Rab-6A/0.601
1vg8GNPRas-related protein Rab-7a/0.581
3oesGNPGTPase RhebL1/0.569
4cymGCPRas-related protein Rab-32/0.566
4o25GTPGTP-binding protein Rheb/0.566
2fe4GDPRas-related protein Rab-6B/0.562
1yhnGTPRas-related protein Rab-7a/0.560
4qxaGTPRas-related protein Rab-9A/0.552
1zbdGTPRas-related protein Rab-3A/0.544
1xtsGTPGTP-binding protein Rheb/0.541
3nbzGTPGTP-binding nuclear protein Ran/0.529
3tsoGNPRas-related protein Rab-25/0.525
3bc1GNPRas-related protein Rab-27A/0.523
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.521
3w3zGTPGTP-binding nuclear protein Ran/0.521
5dhaGNPGTP-binding nuclear protein Ran/0.521
3tnfGNPRas-related protein Rab-8A/0.519
1g17GNPRas-related protein SEC4/0.513
3lawGNPRas-related protein Rab-7a/0.513
1xtrGNPGTP-binding protein Rheb/0.512
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.510
2zetGTPRas-related protein Rab-27B/0.506
3tklGTPRas-related protein Rab-1A/0.504
3a6pGTPGTP-binding nuclear protein Ran/0.502
3lbnGNPGTPase HRas/0.499
4lhwGNPRas-related protein Rab-8A/0.499
3ea5GDPGTP-binding nuclear protein Ran/0.498
3rabGNPRas-related protein Rab-3A/0.496
3a58GNPGTP-binding protein RHO1/0.494
1oixGDPRas-related protein Rab-11A/0.490
1zc3GNPRas-related protein Ral-A/0.488
1e96GTPRas-related C3 botulinum toxin substrate 1/0.486
1zc4GNPRas-related protein Ral-A/0.486
4rkfGNPRas-related protein Rab-3/0.486
4kvgGTPRas-related protein Rap-1A/0.479
1k5dGNPGTP-binding nuclear protein Ran/0.477
2bkuGTPGTP-binding nuclear protein Ran/0.477
3v4fGNPGTPase HRas/0.477
3ddcGNPGTPase HRas/0.476
1ibrGNPGTP-binding nuclear protein Ran/0.475
3oiuGNPGTPase HRas/0.475
4xoiGTPTransforming protein RhoA/0.474
5jljGNPGTP-binding nuclear protein Ran/0.474
1cxzGSPTransforming protein RhoA/0.472
2clsGTPRho-related GTP-binding protein Rho6/0.469
4uj3GNPRas-related protein Rab-11A/0.469
3eg5GNPCell division control protein 42 homolog/0.468
4nyjGNPGTPase HRas/0.468
3rs5GNPGTPase HRas/0.466
4uj5GNPRas-related protein Rab-11A/0.464
2rgeGNPGTPase HRas/0.463
4nyiGNPGTPase HRas/0.463
3i3sGNPGTPase HRas/0.461
5b2zGNPGTPase HRas/0.458
3l8yGNPGTPase HRas/0.453
4mitGTPRho-related protein racC/0.452
1kmqGNPTransforming protein RhoA/0.451
4dltGNPGTPase HRas/0.451
5c46GSPRas-related protein Rab-11A/0.451
4gzmGSPRas-related C3 botulinum toxin substrate 1/0.450
2c5lGTPGTPase HRas/0.449
1lfdGNPGTPase HRas/0.448
3oivGNPGTPase HRas/0.448
3cphGDPRas-related protein SEC4/0.446
5difGNPGTP-binding nuclear protein Ran/0.444
3rs7GNPGTPase HRas/0.443
4dlwGNPGTPase HRas/0.442
1ow3GDPTransforming protein RhoA/0.441
2gcpGSPRho-related GTP-binding protein RhoC/0.441
4g0nGNPGTPase HRas/0.441
3rslGNPGTPase HRas/0.440