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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
3ddcGNPGTPase HRas

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3ddcGNPGTPase HRas/1.000
2rgeGNPGTPase HRas/0.637
3i3sGNPGTPase HRas/0.624
4nyiGNPGTPase HRas/0.618
3kkoGNPRas-related protein M-Ras/0.616
3pitGNPRas-related protein M-Ras/0.614
3v4fGNPGTPase HRas/0.614
4dltGNPGTPase HRas/0.614
3lbnGNPGTPase HRas/0.613
3oivGNPGTPase HRas/0.604
3k8yGNPGTPase HRas/0.598
3lbhGNPGTPase HRas/0.597
3oesGNPGTPase RhebL1/0.594
4dsnGCPGTPase KRas/0.589
2rgcGNPGTPase HRas/0.588
1zc4GNPRas-related protein Ral-A/0.583
4lhwGNPRas-related protein Rab-8A/0.583
4g0nGNPGTPase HRas/0.580
3rs5GNPGTPase HRas/0.578
4k81GTPGTPase HRas/0.574
4dlwGNPGTPase HRas/0.573
2rgbGNPGTPase HRas/0.568
3kucGDPRas-related protein Rap-1A/0.568
5b2zGNPGTPase HRas/0.568
4nyjGNPGTPase HRas/0.565
3x1zGNPRas-related protein Rap-1b/0.564
2c5lGTPGTPase HRas/0.561
3oiuGNPGTPase HRas/0.561
3l8yGNPGTPase HRas/0.559
1zbdGTPRas-related protein Rab-3A/0.558
3e5hGNPRas-related protein Rab-28/0.556
3rs0GNPGTPase HRas/0.555
1yzqGNPRas-related protein Rab-6A/0.549
4rkfGNPRas-related protein Rab-3/0.549
4hdqGNPRas-related protein Rap-1b/0.548
4mitGTPRho-related protein racC/0.547
1xtsGTPGTP-binding protein Rheb/0.546
1e96GTPRas-related C3 botulinum toxin substrate 1/0.544
3kz1GSPTransforming protein RhoA/0.544
3rslGNPGTPase HRas/0.544
3bbpGTPRas-related protein Rab-6A/0.540
4dlxGNPGTPase HRas/0.539
3tsoGNPRas-related protein Rab-25/0.538
3rabGNPRas-related protein Rab-3A/0.537
1t91GTPRas-related protein Rab-7a/0.535
3lbiGNPGTPase HRas/0.534
3w3zGTPGTP-binding nuclear protein Ran/0.534
1cxzGSPTransforming protein RhoA/0.532
4dlvGNPGTPase HRas/0.532
4hdoGNPRas-related protein Rap-1b/0.531
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.530
4dlzGNPGTPase HRas/0.530
1xtrGNPGTP-binding protein Rheb/0.529
3oiwGNPGTPase HRas/0.528
1ibrGNPGTP-binding nuclear protein Ran/0.526
2fe4GDPRas-related protein Rab-6B/0.526
5dhaGNPGTP-binding nuclear protein Ran/0.525
1kmqGNPTransforming protein RhoA/0.524
1zd9GDPADP-ribosylation factor-like protein 8A/0.523
1uadGNPRas-related protein Ral-A/0.521
1zc3GNPRas-related protein Ral-A/0.521
1a2bGSPTransforming protein RhoA/0.520
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.520
3lawGNPRas-related protein Rab-7a/0.519
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.518
3mjhGTPRas-related protein Rab-5A/0.517
4o25GTPGTP-binding protein Rheb/0.517
4xvrGNPGTPase HRas/0.516
3rs4GNPGTPase HRas/0.515
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.514
3rs7GNPGTPase HRas/0.514
5difGNPGTP-binding nuclear protein Ran/0.514
1g17GNPRas-related protein SEC4/0.513
3kudGDPGTPase HRas/0.513
3nbzGTPGTP-binding nuclear protein Ran/0.513
4xvqGNPGTPase HRas/0.513
2rggGNPGTPase HRas/0.512
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.511
3tgpGNPGTPase HRas/0.511
3wyfGTPGTP-binding nuclear protein/0.511
2zetGTPRas-related protein Rab-27B/0.510
4tq9GDPGTPase KRas/0.510
3tnfGNPRas-related protein Rab-8A/0.508
4l9sGDPGTPase HRas/0.507
1yhnGTPRas-related protein Rab-7a/0.506
2ce2GDPGTPase HRas/0.506
3a6pGTPGTP-binding nuclear protein Ran/0.506
1m7bGTPRho-related GTP-binding protein RhoE/0.505
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.505
1oixGDPRas-related protein Rab-11A/0.504
2gilGTPRas-related protein Rab-6A/0.504
1lfdGNPGTPase HRas/0.503
3kkqGDPRas-related protein M-Ras/0.503
3a58GNPGTP-binding protein RHO1/0.502
3cphGDPRas-related protein SEC4/0.502
4qxaGTPRas-related protein Rab-9A/0.501
5jljGNPGTP-binding nuclear protein Ran/0.499
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.497
2ffqGSPRas-related protein Rab-6B/0.494
4kvgGTPRas-related protein Rap-1A/0.491
5hpyGDPTransforming protein RhoA/0.491
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.490
4o2lGTPGTP-binding protein Rheb/0.489
2bkuGTPGTP-binding nuclear protein Ran/0.488
4o2rGDPGTP-binding protein Rheb/0.488
2msdGNPMHC class I alpha chain/0.486
5c46GSPRas-related protein Rab-11A/0.485
4epwGDPGTPase KRas/0.484
4obeGDPGTPase KRas/0.483
4l8gGDPGTPase KRas/0.482
4lucGDPGTPase KRas/0.481
1vg8GNPRas-related protein Rab-7a/0.479
3ea5GDPGTP-binding nuclear protein Ran/0.479
4dlsGNPGTPase HRas/0.479
1k5dGNPGTP-binding nuclear protein Ran/0.478
3eg5GNPCell division control protein 42 homolog/0.478
2gcpGSPRho-related GTP-binding protein RhoC/0.477
3wygGTPGTP-binding nuclear protein GSP1/CNR1/0.476
4ol0GTPGTP-binding nuclear protein Ran/0.475
4ql3GDPGTPase KRas/0.475
4q03GDPGTPase KRas/0.474
4uj3GNPRas-related protein Rab-11A/0.473
3bc1GNPRas-related protein Rab-27A/0.472
4dxaGSPRas-related protein Rap-1b/0.472
2cl6CAGGTPase HRas/0.470
4dsoGSPGTPase KRas/0.470
4epxGDPGTPase KRas/0.467
4lpkGDPGTPase KRas/0.467
1gwnGTPRho-related GTP-binding protein RhoE/0.466
4l9wGNPGTPase HRas/0.466
4xoiGTPTransforming protein RhoA/0.466
4dsuGDPGTPase KRas/0.465
4js0GNPCell division control protein 42 homolog/0.465
1s1cGNPTransforming protein RhoA/0.464
2clsGTPRho-related GTP-binding protein Rho6/0.462
4wa7GDPGTPase KRas/0.461
1z0aGDPRas-related protein Rab-2A/0.460
1z2aGDPRas-related protein Rab-23/0.460
4ldjGDPGTPase KRas/0.458
3qbtGNPRas-related protein Rab-8A/0.456
3th5GNPRas-related C3 botulinum toxin substrate 1/0.456
1d5cGDPGTPase (Rab6)/0.455
4cymGCPRas-related protein Rab-32/0.455
3k9lGNPGTPase HRas/0.453
4lv6GDPGTPase KRas/0.453
1yu9GNPRas-related protein Rab-4A/0.449
4cidANPEH domain-containing protein 2/0.449
2fg5GNPRas-related protein Rab-31/0.447
2ic5GDPRas-related C3 botulinum toxin substrate 3/0.447
2bmeGNPRas-related protein Rab-4A/0.445
4gzmGSPRas-related C3 botulinum toxin substrate 1/0.443
2g0nGDPRas-related C3 botulinum toxin substrate 3/0.442
2p2lGDPRas-related C3 botulinum toxin substrate 1/0.442
1x1rGDPRas-related protein M-Ras/0.441
4q02GDPGTPase KRas/0.441
4lrwGDPGTPase KRas/0.440