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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
3a6pGTPGTP-binding nuclear protein Ran

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3a6pGTPGTP-binding nuclear protein Ran/1.000
5dhaGNPGTP-binding nuclear protein Ran/0.605
3bbpGTPRas-related protein Rab-6A/0.601
3w3zGTPGTP-binding nuclear protein Ran/0.597
3ea5GDPGTP-binding nuclear protein Ran/0.594
1zbdGTPRas-related protein Rab-3A/0.586
4ol0GTPGTP-binding nuclear protein Ran/0.571
1k5dGNPGTP-binding nuclear protein Ran/0.570
3e5hGNPRas-related protein Rab-28/0.569
1xtsGTPGTP-binding protein Rheb/0.567
5jljGNPGTP-binding nuclear protein Ran/0.564
3lbnGNPGTPase HRas/0.562
4mitGTPRho-related protein racC/0.561
2rgcGNPGTPase HRas/0.556
2bkuGTPGTP-binding nuclear protein Ran/0.552
1yhnGTPRas-related protein Rab-7a/0.550
1xtrGNPGTP-binding protein Rheb/0.547
1t91GTPRas-related protein Rab-7a/0.546
2rgeGNPGTPase HRas/0.546
1yzqGNPRas-related protein Rab-6A/0.542
3oiuGNPGTPase HRas/0.541
3a58GNPGTP-binding protein RHO1/0.540
4rkfGNPRas-related protein Rab-3/0.538
2rgbGNPGTPase HRas/0.536
3rs7GNPGTPase HRas/0.533
5difGNPGTP-binding nuclear protein Ran/0.532
2fe4GDPRas-related protein Rab-6B/0.530
3rabGNPRas-related protein Rab-3A/0.530
4nyjGNPGTPase HRas/0.530
5b2zGNPGTPase HRas/0.528
4dlwGNPGTPase HRas/0.525
1ibrGNPGTP-binding nuclear protein Ran/0.524
3nbzGTPGTP-binding nuclear protein Ran/0.524
3pitGNPRas-related protein M-Ras/0.524
3oesGNPGTPase RhebL1/0.521
3v4fGNPGTPase HRas/0.520
3kucGDPRas-related protein Rap-1A/0.519
4qxaGTPRas-related protein Rab-9A/0.519
2zetGTPRas-related protein Rab-27B/0.518
3rs0GNPGTPase HRas/0.518
1zd9GDPADP-ribosylation factor-like protein 8A/0.517
1kmqGNPTransforming protein RhoA/0.516
4o2rGDPGTP-binding protein Rheb/0.516
3ddcGNPGTPase HRas/0.515
4hdoGNPRas-related protein Rap-1b/0.515
4dlzGNPGTPase HRas/0.514
4nyiGNPGTPase HRas/0.514
3i3sGNPGTPase HRas/0.511
3x1zGNPRas-related protein Rap-1b/0.511
1e96GTPRas-related C3 botulinum toxin substrate 1/0.510
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.510
4g0nGNPGTPase HRas/0.510
3tsoGNPRas-related protein Rab-25/0.509
3l8yGNPGTPase HRas/0.508
3wyfGTPGTP-binding nuclear protein/0.508
4dlxGNPGTPase HRas/0.508
1g17GNPRas-related protein SEC4/0.507
4dltGNPGTPase HRas/0.507
3rs5GNPGTPase HRas/0.506
3oivGNPGTPase HRas/0.505
3oiwGNPGTPase HRas/0.504
3kkoGNPRas-related protein M-Ras/0.503
4dsnGCPGTPase KRas/0.503
4lhwGNPRas-related protein Rab-8A/0.503
4o25GTPGTP-binding protein Rheb/0.503
2fg5GNPRas-related protein Rab-31/0.501
3lbhGNPGTPase HRas/0.501
1vg8GNPRas-related protein Rab-7a/0.498
2gcpGSPRho-related GTP-binding protein RhoC/0.497
3kz1GSPTransforming protein RhoA/0.497
3rslGNPGTPase HRas/0.496
3rs4GNPGTPase HRas/0.495
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.494
2ffqGSPRas-related protein Rab-6B/0.494
1oixGDPRas-related protein Rab-11A/0.490
3k8yGNPGTPase HRas/0.490
1a2bGSPTransforming protein RhoA/0.487
2c5lGTPGTPase HRas/0.486
4o2lGTPGTP-binding protein Rheb/0.485
1g16GDPRas-related protein SEC4/0.484
3lbiGNPGTPase HRas/0.484
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.483
4dlsGNPGTPase HRas/0.482
2msdGNPMHC class I alpha chain/0.481
3kudGDPGTPase HRas/0.480
1cxzGSPTransforming protein RhoA/0.476
4uj3GNPRas-related protein Rab-11A/0.474
3bc1GNPRas-related protein Rab-27A/0.471
1s1cGNPTransforming protein RhoA/0.469
4l9wGNPGTPase HRas/0.469
2rggGNPGTPase HRas/0.468
3wygGTPGTP-binding nuclear protein GSP1/CNR1/0.468
3qbtGNPRas-related protein Rab-8A/0.466
4js0GNPCell division control protein 42 homolog/0.466
4xoiGTPTransforming protein RhoA/0.466
4dlvGNPGTPase HRas/0.464
4ql3GDPGTPase KRas/0.464
1m7bGTPRho-related GTP-binding protein RhoE/0.463
1z2aGDPRas-related protein Rab-23/0.463
3tklGTPRas-related protein Rab-1A/0.463
1x1rGDPRas-related protein M-Ras/0.461
4tq9GDPGTPase KRas/0.461
5hpyGDPTransforming protein RhoA/0.461
1ow3GDPTransforming protein RhoA/0.460
1n6lGTPRas-related protein Rab-5A/0.458
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.458
3eg5GNPCell division control protein 42 homolog/0.458
4hdqGNPRas-related protein Rap-1b/0.458
4kvgGTPRas-related protein Rap-1A/0.457
4panGDPGuanine nucleotide-binding protein G(i) subunit alpha-1/0.457
1d5cGDPGTPase (Rab6)/0.456
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.454
4l9sGDPGTPase HRas/0.453
5c46GSPRas-related protein Rab-11A/0.453
1zc4GNPRas-related protein Ral-A/0.451
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.451
4dsoGSPGTPase KRas/0.451
4xvrGNPGTPase HRas/0.451
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.450
3c14GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.450
2clsGTPRho-related GTP-binding protein Rho6/0.449
3cphGDPRas-related protein SEC4/0.442
4cidANPEH domain-containing protein 2/0.442
4epxGDPGTPase KRas/0.440