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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
3ea5GDPGTP-binding nuclear protein Ran

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3ea5GDPGTP-binding nuclear protein Ran/1.000
3a6pGTPGTP-binding nuclear protein Ran/0.640
5dhaGNPGTP-binding nuclear protein Ran/0.631
3e5hGNPRas-related protein Rab-28/0.620
5jljGNPGTP-binding nuclear protein Ran/0.612
3nbzGTPGTP-binding nuclear protein Ran/0.599
2gilGTPRas-related protein Rab-6A/0.598
1yhnGTPRas-related protein Rab-7a/0.597
3oesGNPGTPase RhebL1/0.594
3w3zGTPGTP-binding nuclear protein Ran/0.593
3bbpGTPRas-related protein Rab-6A/0.591
1zbdGTPRas-related protein Rab-3A/0.590
1vg8GNPRas-related protein Rab-7a/0.585
4ol0GTPGTP-binding nuclear protein Ran/0.581
1k5dGNPGTP-binding nuclear protein Ran/0.575
4nyjGNPGTPase HRas/0.570
1yzqGNPRas-related protein Rab-6A/0.568
3rabGNPRas-related protein Rab-3A/0.568
5difGNPGTP-binding nuclear protein Ran/0.567
2bkuGTPGTP-binding nuclear protein Ran/0.566
1t91GTPRas-related protein Rab-7a/0.565
1xtrGNPGTP-binding protein Rheb/0.563
1xtsGTPGTP-binding protein Rheb/0.563
2zetGTPRas-related protein Rab-27B/0.563
4o25GTPGTP-binding protein Rheb/0.562
3lbnGNPGTPase HRas/0.560
3rs5GNPGTPase HRas/0.558
4rkfGNPRas-related protein Rab-3/0.557
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.551
2ffqGSPRas-related protein Rab-6B/0.548
3tsoGNPRas-related protein Rab-25/0.547
5b2zGNPGTPase HRas/0.546
3bc1GNPRas-related protein Rab-27A/0.545
3kudGDPGTPase HRas/0.543
1ibrGNPGTP-binding nuclear protein Ran/0.541
3rs7GNPGTPase HRas/0.541
3i3sGNPGTPase HRas/0.539
4dlwGNPGTPase HRas/0.539
4k81GTPGTPase HRas/0.539
1g17GNPRas-related protein SEC4/0.537
4lhwGNPRas-related protein Rab-8A/0.537
3oiuGNPGTPase HRas/0.535
4dltGNPGTPase HRas/0.535
3rs0GNPGTPase HRas/0.532
3oivGNPGTPase HRas/0.531
1oixGDPRas-related protein Rab-11A/0.530
4qxaGTPRas-related protein Rab-9A/0.530
3rslGNPGTPase HRas/0.529
4kvgGTPRas-related protein Rap-1A/0.529
3v4fGNPGTPase HRas/0.527
2fe4GDPRas-related protein Rab-6B/0.523
4nyiGNPGTPase HRas/0.522
3tnfGNPRas-related protein Rab-8A/0.521
1zd9GDPADP-ribosylation factor-like protein 8A/0.519
2rgeGNPGTPase HRas/0.518
3lawGNPRas-related protein Rab-7a/0.518
3x1zGNPRas-related protein Rap-1b/0.518
2rgbGNPGTPase HRas/0.517
3a58GNPGTP-binding protein RHO1/0.517
3l8yGNPGTPase HRas/0.514
3ddcGNPGTPase HRas/0.513
3oiwGNPGTPase HRas/0.513
4mitGTPRho-related protein racC/0.513
1e96GTPRas-related C3 botulinum toxin substrate 1/0.512
2rgcGNPGTPase HRas/0.512
4dlvGNPGTPase HRas/0.512
3wyfGTPGTP-binding nuclear protein/0.511
4dlxGNPGTPase HRas/0.510
3pitGNPRas-related protein M-Ras/0.506
3wygGTPGTP-binding nuclear protein GSP1/CNR1/0.506
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.502
4dlzGNPGTPase HRas/0.501
1ow3GDPTransforming protein RhoA/0.500
4hdoGNPRas-related protein Rap-1b/0.500
4dsnGCPGTPase KRas/0.498
2c5lGTPGTPase HRas/0.497
4cymGCPRas-related protein Rab-32/0.496
4g0nGNPGTPase HRas/0.496
3kucGDPRas-related protein Rap-1A/0.495
1kmqGNPTransforming protein RhoA/0.494
4l9wGNPGTPase HRas/0.494
1s1cGNPTransforming protein RhoA/0.487
3kkoGNPRas-related protein M-Ras/0.487
3th5GNPRas-related C3 botulinum toxin substrate 1/0.487
3kz1GSPTransforming protein RhoA/0.486
4o2lGTPGTP-binding protein Rheb/0.485
4o2rGDPGTP-binding protein Rheb/0.484
3lbhGNPGTPase HRas/0.482
3tklGTPRas-related protein Rab-1A/0.482
4uj3GNPRas-related protein Rab-11A/0.479
3c14GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.478
3rs4GNPGTPase HRas/0.478
2msdGNPMHC class I alpha chain/0.477
3k8yGNPGTPase HRas/0.476
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.475
4dlsGNPGTPase HRas/0.475
3eg5GNPCell division control protein 42 homolog/0.474
1d5cGDPGTPase (Rab6)/0.472
1g16GDPRas-related protein SEC4/0.472
1zc3GNPRas-related protein Ral-A/0.472
2clsGTPRho-related GTP-binding protein Rho6/0.472
4dsoGSPGTPase KRas/0.471
4js0GNPCell division control protein 42 homolog/0.471
1zc4GNPRas-related protein Ral-A/0.470
1x27ASP_TYR_VAL_HIS_PTRTyrosine-protein kinase Lck2.7.10.20.469
3qbtGNPRas-related protein Rab-8A/0.469
4xoiGTPTransforming protein RhoA/0.469
4gzlGNPRas-related C3 botulinum toxin substrate 1/0.465
1z2cGNPRho-related GTP-binding protein RhoC/0.464
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.464
3mjhGTPRas-related protein Rab-5A/0.463
2x8hFADThioredoxin glutathione reductase/0.462
4uj5GNPRas-related protein Rab-11A/0.462
5hpyGDPTransforming protein RhoA/0.462
3jzdNADMaleylacetate reductase/0.461
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.460
3cphGDPRas-related protein SEC4/0.460
1a2bGSPTransforming protein RhoA/0.457
1m7bGTPRho-related GTP-binding protein RhoE/0.457
2fg5GNPRas-related protein Rab-31/0.457
2gcpGSPRho-related GTP-binding protein RhoC/0.457
1cxzGSPTransforming protein RhoA/0.453
2py7ATPPhosphoenolpyruvate carboxykinase (ATP)/0.452
4dxaGSPRas-related protein Rap-1b/0.452
1z2aGDPRas-related protein Rab-23/0.450
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.449
1uadGNPRas-related protein Ral-A/0.448
4epwGDPGTPase KRas/0.448
4tq9GDPGTPase KRas/0.448
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.447
1w5sADPORC1-type DNA replication protein 2/0.447
4eb7PLPCysteine desulfurase IscS 2/0.447
4gzmGSPRas-related C3 botulinum toxin substrate 1/0.447
4obeGDPGTPase KRas/0.447
1x1rGDPRas-related protein M-Ras/0.446
3t1tGDPProbable gliding protein mglA/0.446
4hdqGNPRas-related protein Rap-1b/0.446
1q12ATPMaltose/maltodextrin import ATP-binding protein MalK/0.445
2vbdV10Isopenicillin N synthase1.21.3.10.445
3cx6GDPGuanine nucleotide-binding protein subunit alpha-13/0.445
1u0hGSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.444
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.444
3h86AP5Adenylate kinase/0.444
1wuaAP8Actin, alpha skeletal muscle/0.443
3keuATPPyridoxal kinase2.7.1.350.443
3lbiGNPGTPase HRas/0.443
3fhyATPPyridoxal kinase2.7.1.350.442
4cidANPEH domain-containing protein 2/0.442
2gvdGSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.441
3mj4URMUDP-galactopyranose mutase/0.441
4b68FADL-ornithine N(5)-monooxygenase/0.441
2g1n1IGRenin3.4.23.150.440
2jb4A14Isopenicillin N synthase1.21.3.10.440
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.440
3c15GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.440
3oqkS52Renin3.4.23.150.440
4dzzADPPlasmid partitioning protein ParF/0.440