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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
4dxaGSPRas-related protein Rap-1b

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4dxaGSPRas-related protein Rap-1b/1.000
1zc3GNPRas-related protein Ral-A/0.578
1zc4GNPRas-related protein Ral-A/0.566
1lfdGNPGTPase HRas/0.565
4dsuGDPGTPase KRas/0.557
3v4fGNPGTPase HRas/0.556
4nyjGNPGTPase HRas/0.550
4nyiGNPGTPase HRas/0.546
1uadGNPRas-related protein Ral-A/0.543
4kvgGTPRas-related protein Rap-1A/0.537
4xvrGNPGTPase HRas/0.531
4l8gGDPGTPase KRas/0.509
1t91GTPRas-related protein Rab-7a/0.508
2rgeGNPGTPase HRas/0.508
3oivGNPGTPase HRas/0.502
3i3sGNPGTPase HRas/0.501
2zetGTPRas-related protein Rab-27B/0.499
3ddcGNPGTPase HRas/0.499
3rs5GNPGTPase HRas/0.498
4l9sGDPGTPase HRas/0.498
3e5hGNPRas-related protein Rab-28/0.497
3oiuGNPGTPase HRas/0.497
4dltGNPGTPase HRas/0.492
4dlwGNPGTPase HRas/0.492
3lbnGNPGTPase HRas/0.491
5c46GSPRas-related protein Rab-11A/0.487
3tsoGNPRas-related protein Rab-25/0.486
5jljGNPGTP-binding nuclear protein Ran/0.486
3w3zGTPGTP-binding nuclear protein Ran/0.485
4q02GDPGTPase KRas/0.484
1vg8GNPRas-related protein Rab-7a/0.483
2fe4GDPRas-related protein Rab-6B/0.483
2c5lGTPGTPase HRas/0.482
3adaNADSubunit alpha of sarocosine oxidase/0.481
1xtsGTPGTP-binding protein Rheb/0.480
1yzqGNPRas-related protein Rab-6A/0.480
2ffqGSPRas-related protein Rab-6B/0.480
1cxzGSPTransforming protein RhoA/0.479
2cl6CAGGTPase HRas/0.479
4rkfGNPRas-related protein Rab-3/0.479
3k8yGNPGTPase HRas/0.477
3l8yGNPGTPase HRas/0.477
4qxaGTPRas-related protein Rab-9A/0.477
4tq9GDPGTPase KRas/0.477
4xvqGNPGTPase HRas/0.477
3kucGDPRas-related protein Rap-1A/0.476
3oesGNPGTPase RhebL1/0.475
3lawGNPRas-related protein Rab-7a/0.474
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.473
1tu3GNPRas-related protein Rab-5A/0.470
1m7bGTPRho-related GTP-binding protein RhoE/0.469
1zbdGTPRas-related protein Rab-3A/0.469
4dlvGNPGTPase HRas/0.468
4l8u9AZSerum albumin/0.468
1a2bGSPTransforming protein RhoA/0.467
2rgcGNPGTPase HRas/0.467
4lhwGNPRas-related protein Rab-8A/0.467
5dhaGNPGTP-binding nuclear protein Ran/0.466
2rggGNPGTPase HRas/0.465
5b2zGNPGTPase HRas/0.465
3kudGDPGTPase HRas/0.464
3x1wGDPRas-related protein Rap-1b/0.464
4o25GTPGTP-binding protein Rheb/0.464
1xtrGNPGTP-binding protein Rheb/0.463
4epwGDPGTPase KRas/0.462
1kmqGNPTransforming protein RhoA/0.461
3kkoGNPRas-related protein M-Ras/0.461
4lucGDPGTPase KRas/0.460
1g17GNPRas-related protein SEC4/0.459
4epxGDPGTPase KRas/0.459
3bc1GNPRas-related protein Rab-27A/0.458
4dlzGNPGTPase HRas/0.458
4k81GTPGTPase HRas/0.457
5hpyGDPTransforming protein RhoA/0.457
1zd9GDPADP-ribosylation factor-like protein 8A/0.455
4dlxGNPGTPase HRas/0.455
3k9lGNPGTPase HRas/0.453
4amjCVDBeta-1 adrenergic receptor/0.453
4iji99TGlutathione S-transferase-like protein YibF/0.453
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.452
4dsoGSPGTPase KRas/0.452
4ol0GTPGTP-binding nuclear protein Ran/0.452
1e96GTPRas-related C3 botulinum toxin substrate 1/0.451
2ce2GDPGTPase HRas/0.451
4dsnGCPGTPase KRas/0.451
1ibrGNPGTP-binding nuclear protein Ran/0.450
1yhnGTPRas-related protein Rab-7a/0.450
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.450
4uj3GNPRas-related protein Rab-11A/0.450
1s1cGNPTransforming protein RhoA/0.449
2v4lABJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.449
3pitGNPRas-related protein M-Ras/0.449
3th5GNPRas-related C3 botulinum toxin substrate 1/0.449
4hdqGNPRas-related protein Rap-1b/0.449
4wa7GDPGTPase KRas/0.448
4fgcPQ0NADPH-dependent 7-cyano-7-deazaguanine reductase1.7.1.130.447
4obeGDPGTPase KRas/0.447
4ldjGDPGTPase KRas/0.446
1z0aGDPRas-related protein Rab-2A/0.445
3lbhGNPGTPase HRas/0.445
3a6pGTPGTP-binding nuclear protein Ran/0.444
3bbpGTPRas-related protein Rab-6A/0.444
3ewsADPATP-dependent RNA helicase DDX19B3.6.4.130.444
3oiwGNPGTPase HRas/0.444
3rs0GNPGTPase HRas/0.443
3tgpGNPGTPase HRas/0.443
4hgl0YOCasein kinase I isoform gamma-32.7.11.10.443
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.442
3a58GNPGTP-binding protein RHO1/0.442
3cphGDPRas-related protein SEC4/0.442
3tklGTPRas-related protein Rab-1A/0.442
4q03GDPGTPase KRas/0.442
2gilGTPRas-related protein Rab-6A/0.441
3hk1B64Fatty acid-binding protein, adipocyte/0.440
4lv6GDPGTPase KRas/0.440