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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
3i3sGNPGTPase HRas

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3i3sGNPGTPase HRas/1.000
3ddcGNPGTPase HRas/0.661
5b2zGNPGTPase HRas/0.660
3l8yGNPGTPase HRas/0.657
3lbnGNPGTPase HRas/0.657
3kkoGNPRas-related protein M-Ras/0.631
4dltGNPGTPase HRas/0.623
3rs5GNPGTPase HRas/0.621
3v4fGNPGTPase HRas/0.621
4dlwGNPGTPase HRas/0.618
3oiuGNPGTPase HRas/0.611
3oivGNPGTPase HRas/0.609
4lhwGNPRas-related protein Rab-8A/0.601
3rs7GNPGTPase HRas/0.594
3pitGNPRas-related protein M-Ras/0.591
2rgeGNPGTPase HRas/0.586
4nyjGNPGTPase HRas/0.586
2rgcGNPGTPase HRas/0.582
4k81GTPGTPase HRas/0.581
4nyiGNPGTPase HRas/0.579
3lbhGNPGTPase HRas/0.569
3k8yGNPGTPase HRas/0.568
3x1zGNPRas-related protein Rap-1b/0.567
2rgbGNPGTPase HRas/0.565
4mitGTPRho-related protein racC/0.565
3rs0GNPGTPase HRas/0.561
3tsoGNPRas-related protein Rab-25/0.560
3rs4GNPGTPase HRas/0.559
4g0nGNPGTPase HRas/0.558
1zbdGTPRas-related protein Rab-3A/0.553
2c5lGTPGTPase HRas/0.553
3e5hGNPRas-related protein Rab-28/0.552
3rslGNPGTPase HRas/0.551
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.551
4dlzGNPGTPase HRas/0.551
4rkfGNPRas-related protein Rab-3/0.548
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.547
3rabGNPRas-related protein Rab-3A/0.546
1t91GTPRas-related protein Rab-7a/0.545
3nbzGTPGTP-binding nuclear protein Ran/0.545
3oiwGNPGTPase HRas/0.545
3kucGDPRas-related protein Rap-1A/0.544
1g17GNPRas-related protein SEC4/0.543
1xtsGTPGTP-binding protein Rheb/0.542
4dlxGNPGTPase HRas/0.542
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.541
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.540
3lbiGNPGTPase HRas/0.540
4qxaGTPRas-related protein Rab-9A/0.539
3a58GNPGTP-binding protein RHO1/0.535
5dhaGNPGTP-binding nuclear protein Ran/0.535
3oesGNPGTPase RhebL1/0.532
4dlvGNPGTPase HRas/0.532
1cxzGSPTransforming protein RhoA/0.531
3a6pGTPGTP-binding nuclear protein Ran/0.531
1kmqGNPTransforming protein RhoA/0.529
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.529
1zc4GNPRas-related protein Ral-A/0.529
1yhnGTPRas-related protein Rab-7a/0.528
4dsnGCPGTPase KRas/0.527
3ea5GDPGTP-binding nuclear protein Ran/0.526
2gilGTPRas-related protein Rab-6A/0.525
3w3zGTPGTP-binding nuclear protein Ran/0.524
4uj3GNPRas-related protein Rab-11A/0.523
1zc3GNPRas-related protein Ral-A/0.522
4hdqGNPRas-related protein Rap-1b/0.522
1yzqGNPRas-related protein Rab-6A/0.521
3kz1GSPTransforming protein RhoA/0.521
1e96GTPRas-related C3 botulinum toxin substrate 1/0.520
4kvgGTPRas-related protein Rap-1A/0.517
1lfdGNPGTPase HRas/0.515
1zd9GDPADP-ribosylation factor-like protein 8A/0.515
3bbpGTPRas-related protein Rab-6A/0.515
3tgpGNPGTPase HRas/0.515
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.514
4dlsGNPGTPase HRas/0.514
5jljGNPGTP-binding nuclear protein Ran/0.514
4l9sGDPGTPase HRas/0.513
1oixGDPRas-related protein Rab-11A/0.512
4dsuGDPGTPase KRas/0.512
5difGNPGTP-binding nuclear protein Ran/0.511
2fe4GDPRas-related protein Rab-6B/0.510
4l9wGNPGTPase HRas/0.510
4hdoGNPRas-related protein Rap-1b/0.508
4o25GTPGTP-binding protein Rheb/0.508
2zetGTPRas-related protein Rab-27B/0.507
3tnfGNPRas-related protein Rab-8A/0.506
4lucGDPGTPase KRas/0.504
4tq9GDPGTPase KRas/0.504
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.503
1ibrGNPGTP-binding nuclear protein Ran/0.500
3kudGDPGTPase HRas/0.498
4l8gGDPGTPase KRas/0.497
1uadGNPRas-related protein Ral-A/0.494
4cymGCPRas-related protein Rab-32/0.494
3eg5GNPCell division control protein 42 homolog/0.493
2bkuGTPGTP-binding nuclear protein Ran/0.492
2ce2GDPGTPase HRas/0.492
4dxaGSPRas-related protein Rap-1b/0.492
1m7bGTPRho-related GTP-binding protein RhoE/0.491
4lpkGDPGTPase KRas/0.491
4xvrGNPGTPase HRas/0.491
1a2bGSPTransforming protein RhoA/0.490
1xtrGNPGTP-binding protein Rheb/0.490
2gcpGSPRho-related GTP-binding protein RhoC/0.489
4dsoGSPGTPase KRas/0.489
4epxGDPGTPase KRas/0.486
4q03GDPGTPase KRas/0.486
2ffqGSPRas-related protein Rab-6B/0.485
4ol0GTPGTP-binding nuclear protein Ran/0.485
1vg8GNPRas-related protein Rab-7a/0.484
3lawGNPRas-related protein Rab-7a/0.484
3kkqGDPRas-related protein M-Ras/0.483
4o2rGDPGTP-binding protein Rheb/0.483
1k5dGNPGTP-binding nuclear protein Ran/0.482
3qbtGNPRas-related protein Rab-8A/0.481
4lv6GDPGTPase KRas/0.480
4obeGDPGTPase KRas/0.480
2cl6CAGGTPase HRas/0.479
4ldjGDPGTPase KRas/0.479
3th5GNPRas-related C3 botulinum toxin substrate 1/0.477
4ql3GDPGTPase KRas/0.475
5hpyGDPTransforming protein RhoA/0.475
4js0GNPCell division control protein 42 homolog/0.474
4q02GDPGTPase KRas/0.474
4xvqGNPGTPase HRas/0.474
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.473
3cphGDPRas-related protein SEC4/0.473
3wyfGTPGTP-binding nuclear protein/0.473
1z0aGDPRas-related protein Rab-2A/0.472
1s1cGNPTransforming protein RhoA/0.471
3bc1GNPRas-related protein Rab-27A/0.471
4epwGDPGTPase KRas/0.470
1x1rGDPRas-related protein M-Ras/0.467
1ow3GDPTransforming protein RhoA/0.466
5c46GSPRas-related protein Rab-11A/0.466
2rggGNPGTPase HRas/0.464
3k9lGNPGTPase HRas/0.464
2p2lGDPRas-related C3 botulinum toxin substrate 1/0.463
3tklGTPRas-related protein Rab-1A/0.463
4xoiGTPTransforming protein RhoA/0.462
2msdGNPMHC class I alpha chain/0.461
4wa7GDPGTPase KRas/0.456
1z2aGDPRas-related protein Rab-23/0.455
1n6lGTPRas-related protein Rab-5A/0.454
4o2lGTPGTP-binding protein Rheb/0.450
3wygGTPGTP-binding nuclear protein GSP1/CNR1/0.446
2clsGTPRho-related GTP-binding protein Rho6/0.443
1yu9GNPRas-related protein Rab-4A/0.440
3c14GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.440