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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
3bc1GNPRas-related protein Rab-27A

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3bc1GNPRas-related protein Rab-27A/1.000
3e5hGNPRas-related protein Rab-28/0.617
5dhaGNPGTP-binding nuclear protein Ran/0.609
3lawGNPRas-related protein Rab-7a/0.594
2ffqGSPRas-related protein Rab-6B/0.593
3oesGNPGTPase RhebL1/0.590
2gilGTPRas-related protein Rab-6A/0.587
2zetGTPRas-related protein Rab-27B/0.584
1yzqGNPRas-related protein Rab-6A/0.577
4o25GTPGTP-binding protein Rheb/0.575
3tsoGNPRas-related protein Rab-25/0.570
3bbpGTPRas-related protein Rab-6A/0.569
1zbdGTPRas-related protein Rab-3A/0.563
3rabGNPRas-related protein Rab-3A/0.563
4cymGCPRas-related protein Rab-32/0.563
1vg8GNPRas-related protein Rab-7a/0.561
2fe4GDPRas-related protein Rab-6B/0.559
1g17GNPRas-related protein SEC4/0.557
1kmqGNPTransforming protein RhoA/0.557
4lhwGNPRas-related protein Rab-8A/0.556
3w3zGTPGTP-binding nuclear protein Ran/0.555
1xtsGTPGTP-binding protein Rheb/0.551
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.550
3ea5GDPGTP-binding nuclear protein Ran/0.550
2bkuGTPGTP-binding nuclear protein Ran/0.549
4qxaGTPRas-related protein Rab-9A/0.549
3rs5GNPGTPase HRas/0.548
1xtrGNPGTP-binding protein Rheb/0.547
5jljGNPGTP-binding nuclear protein Ran/0.547
1yhnGTPRas-related protein Rab-7a/0.543
3nbzGTPGTP-binding nuclear protein Ran/0.542
1t91GTPRas-related protein Rab-7a/0.540
3lbnGNPGTPase HRas/0.537
1zc4GNPRas-related protein Ral-A/0.534
1ibrGNPGTP-binding nuclear protein Ran/0.531
4dltGNPGTPase HRas/0.531
3oivGNPGTPase HRas/0.530
4nyiGNPGTPase HRas/0.529
5b2zGNPGTPase HRas/0.528
3tnfGNPRas-related protein Rab-8A/0.527
1zc3GNPRas-related protein Ral-A/0.522
4rkfGNPRas-related protein Rab-3/0.520
4dlwGNPGTPase HRas/0.518
3oiuGNPGTPase HRas/0.513
3a6pGTPGTP-binding nuclear protein Ran/0.512
3ddcGNPGTPase HRas/0.512
4k81GTPGTPase HRas/0.509
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.508
3v4fGNPGTPase HRas/0.506
3i3sGNPGTPase HRas/0.501
4nyjGNPGTPase HRas/0.500
1e96GTPRas-related C3 botulinum toxin substrate 1/0.499
3rs7GNPGTPase HRas/0.496
4ol0GTPGTP-binding nuclear protein Ran/0.495
2rgeGNPGTPase HRas/0.494
3a58GNPGTP-binding protein RHO1/0.494
4kvgGTPRas-related protein Rap-1A/0.489
1ow3GDPTransforming protein RhoA/0.488
3kucGDPRas-related protein Rap-1A/0.488
4xoiGTPTransforming protein RhoA/0.487
1zd9GDPADP-ribosylation factor-like protein 8A/0.485
3eg5GNPCell division control protein 42 homolog/0.484
3l8yGNPGTPase HRas/0.484
3kudGDPGTPase HRas/0.481
1k5dGNPGTP-binding nuclear protein Ran/0.480
2rgcGNPGTPase HRas/0.480
3tklGTPRas-related protein Rab-1A/0.479
2c5lGTPGTPase HRas/0.477
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.473
5difGNPGTP-binding nuclear protein Ran/0.472
2clsGTPRho-related GTP-binding protein Rho6/0.471
3rslGNPGTPase HRas/0.470
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.469
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.469
4mitGTPRho-related protein racC/0.468
3kz1GSPTransforming protein RhoA/0.467
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.467
4dlxGNPGTPase HRas/0.467
4dsoGSPGTPase KRas/0.467
4dxaGSPRas-related protein Rap-1b/0.467
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.464
4js0GNPCell division control protein 42 homolog/0.464
1cxzGSPTransforming protein RhoA/0.463
4an4DUDPutative glycosyl transferase/0.462
1s1cGNPTransforming protein RhoA/0.460
2rgbGNPGTPase HRas/0.460
3rs0GNPGTPase HRas/0.460
4gzlGNPRas-related C3 botulinum toxin substrate 1/0.459
5hpyGDPTransforming protein RhoA/0.458
1oixGDPRas-related protein Rab-11A/0.457
2gcpGSPRho-related GTP-binding protein RhoC/0.457
3gqvNAPEnoyl reductase LovC10.457
4dlvGNPGTPase HRas/0.457
4uj5GNPRas-related protein Rab-11A/0.457
3kkoGNPRas-related protein M-Ras/0.456
1a2bGSPTransforming protein RhoA/0.455
3jzdNADMaleylacetate reductase/0.454
1q12ATPMaltose/maltodextrin import ATP-binding protein MalK/0.451
1g16GDPRas-related protein SEC4/0.449
3sfh1DIHistone deacetylase 83.5.1.980.449
4iji99TGlutathione S-transferase-like protein YibF/0.449
5irnADPNucleotide binding oligomerization domain containing 2/0.449
1uadGNPRas-related protein Ral-A/0.448
3qbtGNPRas-related protein Rab-8A/0.446
1j36LPRAngiotensin-converting enzyme3.4.15.10.444
4e03ADPPlasmid partitioning protein ParF/0.444
4uj3GNPRas-related protein Rab-11A/0.444
2g1n1IGRenin3.4.23.150.443
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.443
4jln18VDeoxycytidine kinase2.7.1.740.443
1z2cGNPRho-related GTP-binding protein RhoC/0.442
3bg7FADPyranose 2-oxidase/0.442
1x2hLPALipoate-protein ligase A6.3.1.200.441
3e34ED1Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.441
3e34ED1Protein farnesyltransferase subunit beta2.5.1.580.441
4n1gCEIObelin/0.441
3gdpFAD(R)-mandelonitrile lyase 24.1.2.100.440
4a81DXCMajor pollen allergen Bet v 1-A/0.440