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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
3e5hGNPRas-related protein Rab-28

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3e5hGNPRas-related protein Rab-28/1.000
2gilGTPRas-related protein Rab-6A/0.612
1yzqGNPRas-related protein Rab-6A/0.610
3bbpGTPRas-related protein Rab-6A/0.602
2ffqGSPRas-related protein Rab-6B/0.600
1t91GTPRas-related protein Rab-7a/0.596
1yhnGTPRas-related protein Rab-7a/0.591
4o25GTPGTP-binding protein Rheb/0.586
5dhaGNPGTP-binding nuclear protein Ran/0.585
3oesGNPGTPase RhebL1/0.583
2fe4GDPRas-related protein Rab-6B/0.567
4cymGCPRas-related protein Rab-32/0.565
1zbdGTPRas-related protein Rab-3A/0.562
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.560
4qxaGTPRas-related protein Rab-9A/0.554
1vg8GNPRas-related protein Rab-7a/0.552
2zetGTPRas-related protein Rab-27B/0.551
3nbzGTPGTP-binding nuclear protein Ran/0.551
3ea5GDPGTP-binding nuclear protein Ran/0.549
1xtsGTPGTP-binding protein Rheb/0.547
3bc1GNPRas-related protein Rab-27A/0.542
3a6pGTPGTP-binding nuclear protein Ran/0.536
3w3zGTPGTP-binding nuclear protein Ran/0.532
3rabGNPRas-related protein Rab-3A/0.529
3l8yGNPGTPase HRas/0.524
3lawGNPRas-related protein Rab-7a/0.522
4lhwGNPRas-related protein Rab-8A/0.522
1xtrGNPGTP-binding protein Rheb/0.521
3tnfGNPRas-related protein Rab-8A/0.520
5jljGNPGTP-binding nuclear protein Ran/0.520
1zc3GNPRas-related protein Ral-A/0.519
1k5dGNPGTP-binding nuclear protein Ran/0.513
1kmqGNPTransforming protein RhoA/0.511
3oiuGNPGTPase HRas/0.511
3a58GNPGTP-binding protein RHO1/0.510
3ddcGNPGTPase HRas/0.510
3kucGDPRas-related protein Rap-1A/0.510
1e96GTPRas-related C3 botulinum toxin substrate 1/0.509
1zc4GNPRas-related protein Ral-A/0.509
3tsoGNPRas-related protein Rab-25/0.508
4nyjGNPGTPase HRas/0.508
4rkfGNPRas-related protein Rab-3/0.508
1g17GNPRas-related protein SEC4/0.505
3lbnGNPGTPase HRas/0.505
3tklGTPRas-related protein Rab-1A/0.502
4dltGNPGTPase HRas/0.500
4nyiGNPGTPase HRas/0.498
2c5lGTPGTPase HRas/0.497
2rgeGNPGTPase HRas/0.496
4k81GTPGTPase HRas/0.496
4kvgGTPRas-related protein Rap-1A/0.493
4ol0GTPGTP-binding nuclear protein Ran/0.493
2bkuGTPGTP-binding nuclear protein Ran/0.491
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.489
3oivGNPGTPase HRas/0.489
2gcpGSPRho-related GTP-binding protein RhoC/0.487
3cphGDPRas-related protein SEC4/0.487
3i3sGNPGTPase HRas/0.487
3rs5GNPGTPase HRas/0.487
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.486
5b2zGNPGTPase HRas/0.486
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.485
1s1cGNPTransforming protein RhoA/0.484
1lfdGNPGTPase HRas/0.482
3v4fGNPGTPase HRas/0.481
3x1zGNPRas-related protein Rap-1b/0.481
1ibrGNPGTP-binding nuclear protein Ran/0.479
3kkoGNPRas-related protein M-Ras/0.479
1oixGDPRas-related protein Rab-11A/0.477
4xoiGTPTransforming protein RhoA/0.476
1cxzGSPTransforming protein RhoA/0.474
3pitGNPRas-related protein M-Ras/0.473
1a2bGSPTransforming protein RhoA/0.472
4hdoGNPRas-related protein Rap-1b/0.472
1zd9GDPADP-ribosylation factor-like protein 8A/0.471
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.470
1m7bGTPRho-related GTP-binding protein RhoE/0.469
3kz1GSPTransforming protein RhoA/0.468
2rgcGNPGTPase HRas/0.467
4xvrGNPGTPase HRas/0.466
4dlwGNPGTPase HRas/0.465
4mitGTPRho-related protein racC/0.463
5difGNPGTP-binding nuclear protein Ran/0.462
4dsoGSPGTPase KRas/0.456
4js0GNPCell division control protein 42 homolog/0.456
5hpyGDPTransforming protein RhoA/0.456
2gvdGSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.454
3eg5GNPCell division control protein 42 homolog/0.454
1ow3GDPTransforming protein RhoA/0.453
3kudGDPGTPase HRas/0.453
3oiwGNPGTPase HRas/0.453
4eagATP5'-AMP-activated protein kinase subunit gamma-1/0.453
5c46GSPRas-related protein Rab-11A/0.453
3k8yGNPGTPase HRas/0.451
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.451
4g0nGNPGTPase HRas/0.451
1x1aSAMC-20 methyltransferase/0.450
4dsnGCPGTPase KRas/0.449
3c14GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.447
1z2cGNPRho-related GTP-binding protein RhoC/0.446
3wygGTPGTP-binding nuclear protein GSP1/CNR1/0.446
4gzmGSPRas-related C3 botulinum toxin substrate 1/0.445
3rslGNPGTPase HRas/0.442
3rs0GNPGTPase HRas/0.441
3mjhGTPRas-related protein Rab-5A/0.440