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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
4lpkGDPGTPase KRas

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4lpkGDPGTPase KRas/1.000
4lrwGDPGTPase KRas/0.661
4l9sGDPGTPase HRas/0.638
4lucGDPGTPase KRas/0.620
3kkqGDPRas-related protein M-Ras/0.617
4l8gGDPGTPase KRas/0.598
2fe4GDPRas-related protein Rab-6B/0.591
4wa7GDPGTPase KRas/0.588
3k9lGNPGTPase HRas/0.585
4tq9GDPGTPase KRas/0.585
2rggGNPGTPase HRas/0.581
4xvqGNPGTPase HRas/0.576
4lv6GDPGTPase KRas/0.573
4epwGDPGTPase KRas/0.572
3tgpGNPGTPase HRas/0.568
4ql3GDPGTPase KRas/0.568
4obeGDPGTPase KRas/0.563
4q03GDPGTPase KRas/0.558
4hdqGNPRas-related protein Rap-1b/0.557
4ldjGDPGTPase KRas/0.554
4epxGDPGTPase KRas/0.553
4o2rGDPGTP-binding protein Rheb/0.551
2ce2GDPGTPase HRas/0.549
4q02GDPGTPase KRas/0.548
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.546
4nyiGNPGTPase HRas/0.545
1n6lGTPRas-related protein Rab-5A/0.544
2mscGDPMHC class I alpha chain/0.543
3tsoGNPRas-related protein Rab-25/0.543
3mjhGTPRas-related protein Rab-5A/0.540
3v4fGNPGTPase HRas/0.539
4xvrGNPGTPase HRas/0.539
3qbtGNPRas-related protein Rab-8A/0.537
3kkoGNPRas-related protein M-Ras/0.536
3cphGDPRas-related protein SEC4/0.532
2rgeGNPGTPase HRas/0.527
3lbhGNPGTPase HRas/0.526
2fg5GNPRas-related protein Rab-31/0.523
2cl6CAGGTPase HRas/0.521
3lbnGNPGTPase HRas/0.520
1x1rGDPRas-related protein M-Ras/0.517
4nyjGNPGTPase HRas/0.517
5c46GSPRas-related protein Rab-11A/0.516
4lhwGNPRas-related protein Rab-8A/0.515
1z0aGDPRas-related protein Rab-2A/0.514
2rgbGNPGTPase HRas/0.514
3pitGNPRas-related protein M-Ras/0.514
3oivGNPGTPase HRas/0.511
2c5lGTPGTPase HRas/0.509
3i3sGNPGTPase HRas/0.509
3k8yGNPGTPase HRas/0.509
3oiwGNPGTPase HRas/0.509
4g0nGNPGTPase HRas/0.509
1uadGNPRas-related protein Ral-A/0.508
4uj3GNPRas-related protein Rab-11A/0.508
1zc4GNPRas-related protein Ral-A/0.507
3oesGNPGTPase RhebL1/0.507
2bmeGNPRas-related protein Rab-4A/0.505
4dsnGCPGTPase KRas/0.505
3rs4GNPGTPase HRas/0.503
1lfdGNPGTPase HRas/0.502
3ddcGNPGTPase HRas/0.501
4k81GTPGTPase HRas/0.501
3rs5GNPGTPase HRas/0.494
4l9wGNPGTPase HRas/0.494
4qxaGTPRas-related protein Rab-9A/0.492
1zc3GNPRas-related protein Ral-A/0.490
1zd9GDPADP-ribosylation factor-like protein 8A/0.490
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.490
4dltGNPGTPase HRas/0.490
3l8yGNPGTPase HRas/0.488
5b2zGNPGTPase HRas/0.488
1xtsGTPGTP-binding protein Rheb/0.487
3oiuGNPGTPase HRas/0.487
2ic5GDPRas-related C3 botulinum toxin substrate 3/0.486
3lbiGNPGTPase HRas/0.486
3rs0GNPGTPase HRas/0.486
2p2lGDPRas-related C3 botulinum toxin substrate 1/0.485
1tu3GNPRas-related protein Rab-5A/0.484
1yu9GNPRas-related protein Rab-4A/0.484
4hdoGNPRas-related protein Rap-1b/0.484
2npiATPmRNA cleavage and polyadenylation factor CLP1/0.483
1oixGDPRas-related protein Rab-11A/0.481
3x1wGDPRas-related protein Rap-1b/0.481
1yzqGNPRas-related protein Rab-6A/0.480
2q3fGNPRas-related GTP-binding protein D/0.480
3ewsADPATP-dependent RNA helicase DDX19B3.6.4.130.479
5dhaGNPGTP-binding nuclear protein Ran/0.479
4dlzGNPGTPase HRas/0.478
1e96GTPRas-related C3 botulinum toxin substrate 1/0.477
1g16GDPRas-related protein SEC4/0.477
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.477
2rgcGNPGTPase HRas/0.476
3vhxGTPADP-ribosylation factor 6/0.476
1g17GNPRas-related protein SEC4/0.475
3rslGNPGTPase HRas/0.475
3w3zGTPGTP-binding nuclear protein Ran/0.475
4dsuGDPGTPase KRas/0.475
1t91GTPRas-related protein Rab-7a/0.474
5difGNPGTP-binding nuclear protein Ran/0.473
3rs7GNPGTPase HRas/0.472
1z2aGDPRas-related protein Rab-23/0.470
2gilGTPRas-related protein Rab-6A/0.470
4dlvGNPGTPase HRas/0.470
4dlsGNPGTPase HRas/0.469
1zbdGTPRas-related protein Rab-3A/0.468
4dlxGNPGTPase HRas/0.468
1cxzGSPTransforming protein RhoA/0.467
3rabGNPRas-related protein Rab-3A/0.467
3kucGDPRas-related protein Rap-1A/0.466
3x1zGNPRas-related protein Rap-1b/0.466
4uj5GNPRas-related protein Rab-11A/0.465
3bbpGTPRas-related protein Rab-6A/0.464
1ky2GNPGTP-binding protein YPT7/0.463
4fidGDPG protein alpha subunit, putative/0.463
2ffqGSPRas-related protein Rab-6B/0.462
2qf2GDPPhosphoenolpyruvate carboxykinase, cytosolic [GTP]4.1.1.320.462
5hpyGDPTransforming protein RhoA/0.462
4d0lGSPRas-related protein Rab-11A/0.460
3pcrGTPADP-ribosylation factor 6/0.459
4ead0NPThymidine phosphorylase2.4.2.40.459
1xtrGNPGTP-binding protein Rheb/0.458
2xtzGSPGuanine nucleotide-binding protein alpha-1 subunit/0.458
3kudGDPGTPase HRas/0.458
4dlwGNPGTPase HRas/0.458
4o2lGTPGTP-binding protein Rheb/0.458
5jljGNPGTP-binding nuclear protein Ran/0.457
3a58GNPGTP-binding protein RHO1/0.456
1ibrGNPGTP-binding nuclear protein Ran/0.455
3e5hGNPRas-related protein Rab-28/0.455
4dsoGSPGTPase KRas/0.455
2msdGNPMHC class I alpha chain/0.453
4nmbFADBifunctional protein PutA/0.452
4y0vGDPADP-ribosylation factor 1, putative/0.452
3eg5GNPCell division control protein 42 homolog/0.451
3umsGDPGuanine nucleotide-binding protein G(i) subunit alpha-1/0.450
4ma628EAra h 8 allergen/0.450
4px9ADPATP-dependent RNA helicase DDX3X3.6.4.130.450
2g0nGDPRas-related C3 botulinum toxin substrate 3/0.449
4mitGTPRho-related protein racC/0.449
3p3zP3ZPutative cytochrome P450/0.448
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.447
2iutAGSDNA translocase FtsK/0.446
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.446
4gi2NAPCrotonyl-CoA carboxylase/reductase/0.446
4ol0GTPGTP-binding nuclear protein Ran/0.446
5iqiGNPBifunctional AAC/APH2.3.10.446
1kmqGNPTransforming protein RhoA/0.445
4c0bATPmRNA cleavage and polyadenylation factor CLP1/0.445
4dxaGSPRas-related protein Rap-1b/0.445
1am4GNPCell division control protein 42 homolog/0.444
3a6pGTPGTP-binding nuclear protein Ran/0.444
2ic5GNPRas-related C3 botulinum toxin substrate 3/0.443
4kvgGTPRas-related protein Rap-1A/0.443
5di3GNPADP-ribosylation factor-like protein 3/0.443
1d5cGDPGTPase (Rab6)/0.442
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.442
3c16GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.442
4e5j581Polymerase acidic protein/0.442
4ylgGDPADP-ribosylation factor 1, putative/0.442
3tjzGNPADP-ribosylation factor 1/0.441
5iqdGNPBifunctional AAC/APH2.3.10.441
4cidANPEH domain-containing protein 2/0.440
4n5nNAPAcetoacetyl-CoA reductase1.1.1.360.440