Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
1zbdGTPRas-related protein Rab-3A

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1zbdGTPRas-related protein Rab-3A/1.000
3oesGNPGTPase RhebL1/0.616
2gilGTPRas-related protein Rab-6A/0.593
5dhaGNPGTP-binding nuclear protein Ran/0.592
1xtsGTPGTP-binding protein Rheb/0.580
3lawGNPRas-related protein Rab-7a/0.578
1t91GTPRas-related protein Rab-7a/0.573
1yzqGNPRas-related protein Rab-6A/0.562
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.562
3w3zGTPGTP-binding nuclear protein Ran/0.561
2fe4GDPRas-related protein Rab-6B/0.560
3bbpGTPRas-related protein Rab-6A/0.556
3e5hGNPRas-related protein Rab-28/0.555
3a6pGTPGTP-binding nuclear protein Ran/0.549
4o25GTPGTP-binding protein Rheb/0.548
3nbzGTPGTP-binding nuclear protein Ran/0.547
2ffqGSPRas-related protein Rab-6B/0.545
1xtrGNPGTP-binding protein Rheb/0.543
2zetGTPRas-related protein Rab-27B/0.543
3oiuGNPGTPase HRas/0.543
1vg8GNPRas-related protein Rab-7a/0.541
1yhnGTPRas-related protein Rab-7a/0.527
4lhwGNPRas-related protein Rab-8A/0.525
3ddcGNPGTPase HRas/0.524
3rabGNPRas-related protein Rab-3A/0.522
3v4fGNPGTPase HRas/0.522
4cymGCPRas-related protein Rab-32/0.522
4dltGNPGTPase HRas/0.522
4qxaGTPRas-related protein Rab-9A/0.521
1zc4GNPRas-related protein Ral-A/0.520
3ea5GDPGTP-binding nuclear protein Ran/0.520
3a58GNPGTP-binding protein RHO1/0.519
4nyjGNPGTPase HRas/0.519
5jljGNPGTP-binding nuclear protein Ran/0.518
1g17GNPRas-related protein SEC4/0.514
3lbnGNPGTPase HRas/0.514
3oivGNPGTPase HRas/0.514
5hpyGDPTransforming protein RhoA/0.512
1zd9GDPADP-ribosylation factor-like protein 8A/0.510
1e96GTPRas-related C3 botulinum toxin substrate 1/0.509
1ibrGNPGTP-binding nuclear protein Ran/0.508
4mitGTPRho-related protein racC/0.508
4rkfGNPRas-related protein Rab-3/0.506
1zc3GNPRas-related protein Ral-A/0.503
2bkuGTPGTP-binding nuclear protein Ran/0.503
4k81GTPGTPase HRas/0.503
1k5dGNPGTP-binding nuclear protein Ran/0.501
3kucGDPRas-related protein Rap-1A/0.500
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.497
3bc1GNPRas-related protein Rab-27A/0.496
3i3sGNPGTPase HRas/0.496
3tsoGNPRas-related protein Rab-25/0.496
4nyiGNPGTPase HRas/0.493
1lfdGNPGTPase HRas/0.490
4js0GNPCell division control protein 42 homolog/0.490
1kmqGNPTransforming protein RhoA/0.489
3kkoGNPRas-related protein M-Ras/0.488
3rs5GNPGTPase HRas/0.488
3kz1GSPTransforming protein RhoA/0.487
3tnfGNPRas-related protein Rab-8A/0.487
4ol0GTPGTP-binding nuclear protein Ran/0.486
4kvgGTPRas-related protein Rap-1A/0.485
5b2zGNPGTPase HRas/0.485
3eg5GNPCell division control protein 42 homolog/0.484
3l8yGNPGTPase HRas/0.484
4g0nGNPGTPase HRas/0.481
3pitGNPRas-related protein M-Ras/0.480
3tklGTPRas-related protein Rab-1A/0.480
2c5lGTPGTPase HRas/0.479
3lbhGNPGTPase HRas/0.478
1a2bGSPTransforming protein RhoA/0.476
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.476
2rgeGNPGTPase HRas/0.476
2rgbGNPGTPase HRas/0.475
3wyfGTPGTP-binding nuclear protein/0.473
3x1zGNPRas-related protein Rap-1b/0.470
1ow3GDPTransforming protein RhoA/0.466
3qbtGNPRas-related protein Rab-8A/0.464
4uj3GNPRas-related protein Rab-11A/0.464
1m7bGTPRho-related GTP-binding protein RhoE/0.463
3mjhGTPRas-related protein Rab-5A/0.462
4lucGDPGTPase KRas/0.462
4xoiGTPTransforming protein RhoA/0.462
2ql6ADPNicotinamide riboside kinase 1/0.461
2rgcGNPGTPase HRas/0.460
5difGNPGTP-binding nuclear protein Ran/0.460
2fg5GNPRas-related protein Rab-31/0.459
1s1cGNPTransforming protein RhoA/0.458
3cphGDPRas-related protein SEC4/0.458
4uj5GNPRas-related protein Rab-11A/0.458
1oixGDPRas-related protein Rab-11A/0.457
3oiwGNPGTPase HRas/0.457
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.456
1cxzGSPTransforming protein RhoA/0.455
2gcpGSPRho-related GTP-binding protein RhoC/0.455
4dsnGCPGTPase KRas/0.455
3kudGDPGTPase HRas/0.454
4o2rGDPGTP-binding protein Rheb/0.454
2gvdGSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.453
3rs7GNPGTPase HRas/0.453
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.452
4epxGDPGTPase KRas/0.452
2clsGTPRho-related GTP-binding protein Rho6/0.451
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.451
4dlsGNPGTPase HRas/0.451
4hdoGNPRas-related protein Rap-1b/0.448
4tyqAP5Adenylate kinase/0.448
3lbiGNPGTPase HRas/0.447
4xvrGNPGTPase HRas/0.446
1uadGNPRas-related protein Ral-A/0.444
4dlwGNPGTPase HRas/0.442
4ohxADPProtein clpf-1/0.441
3zvmADPBifunctional polynucleotide phosphatase/kinase2.7.1.780.440