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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
3v4fGNPGTPase HRas

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3v4fGNPGTPase HRas/1.000
3lbnGNPGTPase HRas/0.761
3rs0GNPGTPase HRas/0.712
3rs5GNPGTPase HRas/0.687
4dlwGNPGTPase HRas/0.667
3oivGNPGTPase HRas/0.664
2rgcGNPGTPase HRas/0.639
3ddcGNPGTPase HRas/0.636
3k8yGNPGTPase HRas/0.629
4nyiGNPGTPase HRas/0.626
3oiuGNPGTPase HRas/0.624
2rgeGNPGTPase HRas/0.622
4lhwGNPRas-related protein Rab-8A/0.613
4dlzGNPGTPase HRas/0.610
4nyjGNPGTPase HRas/0.607
4dltGNPGTPase HRas/0.606
4dlxGNPGTPase HRas/0.606
4dlvGNPGTPase HRas/0.605
5b2zGNPGTPase HRas/0.605
2c5lGTPGTPase HRas/0.604
3i3sGNPGTPase HRas/0.603
4k81GTPGTPase HRas/0.597
2rgbGNPGTPase HRas/0.593
3l8yGNPGTPase HRas/0.593
3oesGNPGTPase RhebL1/0.590
3x1zGNPRas-related protein Rap-1b/0.581
3pitGNPRas-related protein M-Ras/0.580
4rkfGNPRas-related protein Rab-3/0.579
3kkoGNPRas-related protein M-Ras/0.577
3rs7GNPGTPase HRas/0.574
4g0nGNPGTPase HRas/0.573
1zbdGTPRas-related protein Rab-3A/0.572
3rabGNPRas-related protein Rab-3A/0.572
3rslGNPGTPase HRas/0.572
2zetGTPRas-related protein Rab-27B/0.569
1ibrGNPGTP-binding nuclear protein Ran/0.566
4hdoGNPRas-related protein Rap-1b/0.564
1e96GTPRas-related C3 botulinum toxin substrate 1/0.560
4mitGTPRho-related protein racC/0.560
5jljGNPGTP-binding nuclear protein Ran/0.558
4qxaGTPRas-related protein Rab-9A/0.553
4o25GTPGTP-binding protein Rheb/0.552
1t91GTPRas-related protein Rab-7a/0.551
1yzqGNPRas-related protein Rab-6A/0.550
3kucGDPRas-related protein Rap-1A/0.550
3oiwGNPGTPase HRas/0.549
3e5hGNPRas-related protein Rab-28/0.548
1g17GNPRas-related protein SEC4/0.547
4dsnGCPGTPase KRas/0.547
1zc3GNPRas-related protein Ral-A/0.546
3lbiGNPGTPase HRas/0.545
3nbzGTPGTP-binding nuclear protein Ran/0.544
4dxaGSPRas-related protein Rap-1b/0.543
1xtsGTPGTP-binding protein Rheb/0.539
2gilGTPRas-related protein Rab-6A/0.539
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.539
3a6pGTPGTP-binding nuclear protein Ran/0.539
3lbhGNPGTPase HRas/0.539
3tsoGNPRas-related protein Rab-25/0.535
4kvgGTPRas-related protein Rap-1A/0.533
1zc4GNPRas-related protein Ral-A/0.530
1lfdGNPGTPase HRas/0.528
3ea5GDPGTP-binding nuclear protein Ran/0.527
3bbpGTPRas-related protein Rab-6A/0.526
4uj3GNPRas-related protein Rab-11A/0.524
5dhaGNPGTP-binding nuclear protein Ran/0.522
5difGNPGTP-binding nuclear protein Ran/0.522
2cl6CAGGTPase HRas/0.521
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.520
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.519
4l9wGNPGTPase HRas/0.519
1kmqGNPTransforming protein RhoA/0.517
1xtrGNPGTP-binding protein Rheb/0.514
2fe4GDPRas-related protein Rab-6B/0.514
3a58GNPGTP-binding protein RHO1/0.513
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.513
4xvrGNPGTPase HRas/0.513
3kudGDPGTPase HRas/0.512
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.511
3w3zGTPGTP-binding nuclear protein Ran/0.511
4tq9GDPGTPase KRas/0.511
3wyfGTPGTP-binding nuclear protein/0.510
1cxzGSPTransforming protein RhoA/0.509
4dlsGNPGTPase HRas/0.508
4ol0GTPGTP-binding nuclear protein Ran/0.508
5c46GSPRas-related protein Rab-11A/0.508
3rs4GNPGTPase HRas/0.505
1m7bGTPRho-related GTP-binding protein RhoE/0.503
4hdqGNPRas-related protein Rap-1b/0.503
4js0GNPCell division control protein 42 homolog/0.503
5hpyGDPTransforming protein RhoA/0.502
3bc1GNPRas-related protein Rab-27A/0.501
1vg8GNPRas-related protein Rab-7a/0.499
2rggGNPGTPase HRas/0.499
4lpkGDPGTPase KRas/0.498
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.497
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.497
3tklGTPRas-related protein Rab-1A/0.496
1ow3GDPTransforming protein RhoA/0.495
1zd9GDPADP-ribosylation factor-like protein 8A/0.495
2gcpGSPRho-related GTP-binding protein RhoC/0.493
1k5dGNPGTP-binding nuclear protein Ran/0.491
1oixGDPRas-related protein Rab-11A/0.491
1yhnGTPRas-related protein Rab-7a/0.491
4l9sGDPGTPase HRas/0.490
4xoiGTPTransforming protein RhoA/0.490
3tnfGNPRas-related protein Rab-8A/0.489
4xvqGNPGTPase HRas/0.488
2ffqGSPRas-related protein Rab-6B/0.487
1a2bGSPTransforming protein RhoA/0.484
3lawGNPRas-related protein Rab-7a/0.484
3qbtGNPRas-related protein Rab-8A/0.484
4uj5GNPRas-related protein Rab-11A/0.484
3tgpGNPGTPase HRas/0.480
4lv6GDPGTPase KRas/0.480
2clsGTPRho-related GTP-binding protein Rho6/0.477
3kz1GSPTransforming protein RhoA/0.477
4epxGDPGTPase KRas/0.477
4o2lGTPGTP-binding protein Rheb/0.477
1uadGNPRas-related protein Ral-A/0.476
4cymGCPRas-related protein Rab-32/0.476
1n6lGTPRas-related protein Rab-5A/0.475
2bkuGTPGTP-binding nuclear protein Ran/0.475
3eg5GNPCell division control protein 42 homolog/0.475
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.474
4epwGDPGTPase KRas/0.472
4ql3GDPGTPase KRas/0.470
2ce2GDPGTPase HRas/0.469
3wygGTPGTP-binding nuclear protein GSP1/CNR1/0.469
4l8gGDPGTPase KRas/0.468
4obeGDPGTPase KRas/0.467
1s1cGNPTransforming protein RhoA/0.465
3cphGDPRas-related protein SEC4/0.465
3kkqGDPRas-related protein M-Ras/0.465
4dsuGDPGTPase KRas/0.465
1yu9GNPRas-related protein Rab-4A/0.464
4q03GDPGTPase KRas/0.464
4lucGDPGTPase KRas/0.462
4wa7GDPGTPase KRas/0.462
2msdGNPMHC class I alpha chain/0.459
4d0lGSPRas-related protein Rab-11A/0.456
1z2cGNPRho-related GTP-binding protein RhoC/0.455
3mjhGTPRas-related protein Rab-5A/0.454
1d5cGDPGTPase (Rab6)/0.453
2fg5GNPRas-related protein Rab-31/0.453
3th5GNPRas-related C3 botulinum toxin substrate 1/0.453
2bmeGNPRas-related protein Rab-4A/0.451
4gzlGNPRas-related C3 botulinum toxin substrate 1/0.450
4dsoGSPGTPase KRas/0.448
4qbfAP5Adenylate kinase/0.448
1z0aGDPRas-related protein Rab-2A/0.444
3k9lGNPGTPase HRas/0.444
4cidANPEH domain-containing protein 2/0.444
1gwnGTPRho-related GTP-binding protein RhoE/0.443
4q02GDPGTPase KRas/0.443
3x1wGDPRas-related protein Rap-1b/0.442
1z2aGDPRas-related protein Rab-23/0.441