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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
3cphGDPRas-related protein SEC4

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3cphGDPRas-related protein SEC4/1.000
2fe4GDPRas-related protein Rab-6B/0.552
3mjhGTPRas-related protein Rab-5A/0.506
4xvrGNPGTPase HRas/0.497
1t91GTPRas-related protein Rab-7a/0.491
4lhwGNPRas-related protein Rab-8A/0.490
2rgeGNPGTPase HRas/0.484
1lfdGNPGTPase HRas/0.483
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.482
1yzqGNPRas-related protein Rab-6A/0.482
2gilGTPRas-related protein Rab-6A/0.482
4qxaGTPRas-related protein Rab-9A/0.482
1zbdGTPRas-related protein Rab-3A/0.478
3e5hGNPRas-related protein Rab-28/0.477
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.473
1xtsGTPGTP-binding protein Rheb/0.470
3ddcGNPGTPase HRas/0.470
3lbnGNPGTPase HRas/0.469
3pitGNPRas-related protein M-Ras/0.469
4uj3GNPRas-related protein Rab-11A/0.469
1n6lGTPRas-related protein Rab-5A/0.463
3nbzGTPGTP-binding nuclear protein Ran/0.463
4d0lGSPRas-related protein Rab-11A/0.463
4o2rGDPGTP-binding protein Rheb/0.463
3tsoGNPRas-related protein Rab-25/0.462
3oesGNPGTPase RhebL1/0.461
5c46GSPRas-related protein Rab-11A/0.461
3qbtGNPRas-related protein Rab-8A/0.460
4k81GTPGTPase HRas/0.458
4q03GDPGTPase KRas/0.457
2c5lGTPGTPase HRas/0.456
1g16GDPRas-related protein SEC4/0.455
1z0aGDPRas-related protein Rab-2A/0.455
3v4fGNPGTPase HRas/0.455
4o25GTPGTP-binding protein Rheb/0.455
1tu3GNPRas-related protein Rab-5A/0.454
2ffqGSPRas-related protein Rab-6B/0.454
2rggGNPGTPase HRas/0.453
3oiuGNPGTPase HRas/0.452
4fw8NAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.452
4hdqGNPRas-related protein Rap-1b/0.452
2rgcGNPGTPase HRas/0.451
3oivGNPGTPase HRas/0.451
4g0nGNPGTPase HRas/0.450
1x1rGDPRas-related protein M-Ras/0.449
1xtrGNPGTP-binding protein Rheb/0.449
3x1zGNPRas-related protein Rap-1b/0.449
4uj5GNPRas-related protein Rab-11A/0.449
1q6s214Tyrosine-protein phosphatase non-receptor type 13.1.3.480.447
3w8eNAD3-hydroxybutyrate dehydrogenase/0.447
4epxGDPGTPase KRas/0.447
4mitGTPRho-related protein racC/0.447
2xtzGSPGuanine nucleotide-binding protein alpha-1 subunit/0.446
4lpkGDPGTPase KRas/0.446
3kucGDPRas-related protein Rap-1A/0.445
2fg5GNPRas-related protein Rab-31/0.444
2q2vNADBeta-D-hydroxybutyrate dehydrogenase/0.444
2zetGTPRas-related protein Rab-27B/0.444
3lawGNPRas-related protein Rab-7a/0.444
3tgpGNPGTPase HRas/0.444
1g63FMNEpidermin decarboxylase4.1.10.443
4nyiGNPGTPase HRas/0.443
5e8jSAHmRNA cap guanine-N7 methyltransferase2.1.1.560.443
1zd9GDPADP-ribosylation factor-like protein 8A/0.442
2ztvNADD(-)-3-hydroxybutyrate dehydrogenase/0.442
1oixGDPRas-related protein Rab-11A/0.441
1zc4GNPRas-related protein Ral-A/0.441
4q71FADBifunctional protein PutA/0.441
2p2lGDPRas-related C3 botulinum toxin substrate 1/0.440
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.440
3flkNAITartrate dehydrogenase/decarboxylase1.1.1.930.440
3l8yGNPGTPase HRas/0.440