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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
3kucGDPRas-related protein Rap-1A

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3kucGDPRas-related protein Rap-1A/1.000
3oivGNPGTPase HRas/0.588
3lbnGNPGTPase HRas/0.577
3oiuGNPGTPase HRas/0.575
2rgeGNPGTPase HRas/0.570
3ddcGNPGTPase HRas/0.565
4dsnGCPGTPase KRas/0.561
3kkoGNPRas-related protein M-Ras/0.557
5b2zGNPGTPase HRas/0.556
4nyjGNPGTPase HRas/0.555
4nyiGNPGTPase HRas/0.554
1m7bGTPRho-related GTP-binding protein RhoE/0.553
1zc3GNPRas-related protein Ral-A/0.553
3w3zGTPGTP-binding nuclear protein Ran/0.551
4k81GTPGTPase HRas/0.548
1zbdGTPRas-related protein Rab-3A/0.546
3v4fGNPGTPase HRas/0.545
2rgcGNPGTPase HRas/0.544
4dltGNPGTPase HRas/0.541
1xtsGTPGTP-binding protein Rheb/0.536
3lawGNPRas-related protein Rab-7a/0.536
3pitGNPRas-related protein M-Ras/0.536
2gilGTPRas-related protein Rab-6A/0.535
1kmqGNPTransforming protein RhoA/0.534
3e5hGNPRas-related protein Rab-28/0.534
3l8yGNPGTPase HRas/0.529
3rs5GNPGTPase HRas/0.529
2rgbGNPGTPase HRas/0.526
1zc4GNPRas-related protein Ral-A/0.525
3a58GNPGTP-binding protein RHO1/0.525
3i3sGNPGTPase HRas/0.524
3a6pGTPGTP-binding nuclear protein Ran/0.523
3oesGNPGTPase RhebL1/0.522
3x1zGNPRas-related protein Rap-1b/0.522
4dlwGNPGTPase HRas/0.520
2c5lGTPGTPase HRas/0.519
3nbzGTPGTP-binding nuclear protein Ran/0.518
1a2bGSPTransforming protein RhoA/0.516
3bbpGTPRas-related protein Rab-6A/0.516
1e96GTPRas-related C3 botulinum toxin substrate 1/0.515
3rabGNPRas-related protein Rab-3A/0.514
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.514
5dhaGNPGTP-binding nuclear protein Ran/0.514
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.513
1oixGDPRas-related protein Rab-11A/0.510
4mitGTPRho-related protein racC/0.509
3oiwGNPGTPase HRas/0.506
1t91GTPRas-related protein Rab-7a/0.505
1g17GNPRas-related protein SEC4/0.504
3k8yGNPGTPase HRas/0.503
3mjhGTPRas-related protein Rab-5A/0.501
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.500
3rs7GNPGTPase HRas/0.500
3tsoGNPRas-related protein Rab-25/0.500
4lhwGNPRas-related protein Rab-8A/0.500
4g0nGNPGTPase HRas/0.499
1xtrGNPGTP-binding protein Rheb/0.498
2fe4GDPRas-related protein Rab-6B/0.497
3lbhGNPGTPase HRas/0.497
4qxaGTPRas-related protein Rab-9A/0.496
1yhnGTPRas-related protein Rab-7a/0.495
3kudGDPGTPase HRas/0.494
2clsGTPRho-related GTP-binding protein Rho6/0.493
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.492
3rs0GNPGTPase HRas/0.492
3kz1GSPTransforming protein RhoA/0.490
4hdqGNPRas-related protein Rap-1b/0.490
4rkfGNPRas-related protein Rab-3/0.490
4dlzGNPGTPase HRas/0.488
2ffqGSPRas-related protein Rab-6B/0.487
2zetGTPRas-related protein Rab-27B/0.487
4kvgGTPRas-related protein Rap-1A/0.486
3rs4GNPGTPase HRas/0.485
3rslGNPGTPase HRas/0.485
4cymGCPRas-related protein Rab-32/0.485
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.484
4xoiGTPTransforming protein RhoA/0.483
2bkuGTPGTP-binding nuclear protein Ran/0.482
4hdoGNPRas-related protein Rap-1b/0.482
3lbiGNPGTPase HRas/0.481
1cxzGSPTransforming protein RhoA/0.480
3cphGDPRas-related protein SEC4/0.479
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.478
2gcpGSPRho-related GTP-binding protein RhoC/0.477
4ol0GTPGTP-binding nuclear protein Ran/0.477
2rggGNPGTPase HRas/0.476
1gwnGTPRho-related GTP-binding protein RhoE/0.474
1s1cGNPTransforming protein RhoA/0.474
1vg8GNPRas-related protein Rab-7a/0.474
4dlxGNPGTPase HRas/0.474
1uadGNPRas-related protein Ral-A/0.472
3eg5GNPCell division control protein 42 homolog/0.472
1zd9GDPADP-ribosylation factor-like protein 8A/0.471
5difGNPGTP-binding nuclear protein Ran/0.471
3ea5GDPGTP-binding nuclear protein Ran/0.470
3tnfGNPRas-related protein Rab-8A/0.470
4dlsGNPGTPase HRas/0.468
4lucGDPGTPase KRas/0.468
4tq9GDPGTPase KRas/0.467
1ibrGNPGTP-binding nuclear protein Ran/0.465
1k5dGNPGTP-binding nuclear protein Ran/0.460
1lfdGNPGTPase HRas/0.459
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.459
4dlvGNPGTPase HRas/0.459
4o25GTPGTP-binding protein Rheb/0.459
1yzqGNPRas-related protein Rab-6A/0.458
3bc1GNPRas-related protein Rab-27A/0.457
4dxaGSPRas-related protein Rap-1b/0.455
2ce2GDPGTPase HRas/0.453
4wa7GDPGTPase KRas/0.452
3kkqGDPRas-related protein M-Ras/0.450
5hpyGDPTransforming protein RhoA/0.450
5jljGNPGTP-binding nuclear protein Ran/0.449
4epxGDPGTPase KRas/0.448
4uj3GNPRas-related protein Rab-11A/0.448
4xvrGNPGTPase HRas/0.448
4l9wGNPGTPase HRas/0.447
4lpkGDPGTPase KRas/0.447
2msdGNPMHC class I alpha chain/0.446
1tu3GNPRas-related protein Rab-5A/0.445
4l9sGDPGTPase HRas/0.445
4dsuGDPGTPase KRas/0.440