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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
2c5lGTPGTPase HRas

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2c5lGTPGTPase HRas/1.000
2rgcGNPGTPase HRas/0.658
3v4fGNPGTPase HRas/0.656
3pitGNPRas-related protein M-Ras/0.651
2rgbGNPGTPase HRas/0.639
2rgeGNPGTPase HRas/0.638
3oivGNPGTPase HRas/0.638
3kkoGNPRas-related protein M-Ras/0.631
3oiwGNPGTPase HRas/0.629
3ddcGNPGTPase HRas/0.622
4dlxGNPGTPase HRas/0.616
4nyjGNPGTPase HRas/0.614
3l8yGNPGTPase HRas/0.612
4dltGNPGTPase HRas/0.610
4hdoGNPRas-related protein Rap-1b/0.609
3rs5GNPGTPase HRas/0.607
4dsnGCPGTPase KRas/0.603
4dlwGNPGTPase HRas/0.602
3lbhGNPGTPase HRas/0.601
4g0nGNPGTPase HRas/0.600
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.597
3lbnGNPGTPase HRas/0.597
3i3sGNPGTPase HRas/0.596
3lbiGNPGTPase HRas/0.595
4dlzGNPGTPase HRas/0.595
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.594
1t91GTPRas-related protein Rab-7a/0.593
3oiuGNPGTPase HRas/0.593
3rs0GNPGTPase HRas/0.593
3rs4GNPGTPase HRas/0.593
1e96GTPRas-related C3 botulinum toxin substrate 1/0.592
4dlvGNPGTPase HRas/0.590
3k8yGNPGTPase HRas/0.589
4nyiGNPGTPase HRas/0.589
3x1zGNPRas-related protein Rap-1b/0.587
3e5hGNPRas-related protein Rab-28/0.585
3rslGNPGTPase HRas/0.584
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.583
1zc4GNPRas-related protein Ral-A/0.582
3oesGNPGTPase RhebL1/0.581
5b2zGNPGTPase HRas/0.581
4hdqGNPRas-related protein Rap-1b/0.580
3kudGDPGTPase HRas/0.578
3rabGNPRas-related protein Rab-3A/0.577
4mitGTPRho-related protein racC/0.577
4kvgGTPRas-related protein Rap-1A/0.576
3rs7GNPGTPase HRas/0.575
3kucGDPRas-related protein Rap-1A/0.573
4dlsGNPGTPase HRas/0.572
4xvrGNPGTPase HRas/0.572
1kmqGNPTransforming protein RhoA/0.571
1zc3GNPRas-related protein Ral-A/0.571
3bbpGTPRas-related protein Rab-6A/0.571
1m7bGTPRho-related GTP-binding protein RhoE/0.567
1yhnGTPRas-related protein Rab-7a/0.566
3a58GNPGTP-binding protein RHO1/0.565
1xtsGTPGTP-binding protein Rheb/0.564
1zbdGTPRas-related protein Rab-3A/0.563
5dhaGNPGTP-binding nuclear protein Ran/0.563
4lhwGNPRas-related protein Rab-8A/0.559
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.557
3a6pGTPGTP-binding nuclear protein Ran/0.556
1xtrGNPGTP-binding protein Rheb/0.555
1yzqGNPRas-related protein Rab-6A/0.554
3eg5GNPCell division control protein 42 homolog/0.554
4l9wGNPGTPase HRas/0.554
2fe4GDPRas-related protein Rab-6B/0.552
3w3zGTPGTP-binding nuclear protein Ran/0.552
5jljGNPGTP-binding nuclear protein Ran/0.550
5difGNPGTP-binding nuclear protein Ran/0.548
1cxzGSPTransforming protein RhoA/0.547
4o25GTPGTP-binding protein Rheb/0.546
4rkfGNPRas-related protein Rab-3/0.545
1vg8GNPRas-related protein Rab-7a/0.544
1g17GNPRas-related protein SEC4/0.543
3tklGTPRas-related protein Rab-1A/0.541
4xvqGNPGTPase HRas/0.539
1a2bGSPTransforming protein RhoA/0.538
1ibrGNPGTP-binding nuclear protein Ran/0.538
2gcpGSPRho-related GTP-binding protein RhoC/0.538
4js0GNPCell division control protein 42 homolog/0.535
4tq9GDPGTPase KRas/0.534
3wyfGTPGTP-binding nuclear protein/0.532
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.529
3ea5GDPGTP-binding nuclear protein Ran/0.529
3kkqGDPRas-related protein M-Ras/0.528
3tgpGNPGTPase HRas/0.526
3tsoGNPRas-related protein Rab-25/0.526
1gwnGTPRho-related GTP-binding protein RhoE/0.525
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.525
3nbzGTPGTP-binding nuclear protein Ran/0.524
4dsoGSPGTPase KRas/0.521
4epxGDPGTPase KRas/0.521
3kz1GSPTransforming protein RhoA/0.518
4l8gGDPGTPase KRas/0.518
3k9lGNPGTPase HRas/0.517
4l9sGDPGTPase HRas/0.517
2ffqGSPRas-related protein Rab-6B/0.513
4qxaGTPRas-related protein Rab-9A/0.513
2rggGNPGTPase HRas/0.512
4ql3GDPGTPase KRas/0.512
3cphGDPRas-related protein SEC4/0.510
1lfdGNPGTPase HRas/0.509
2bkuGTPGTP-binding nuclear protein Ran/0.508
2clsGTPRho-related GTP-binding protein Rho6/0.508
4o2lGTPGTP-binding protein Rheb/0.508
4ol0GTPGTP-binding nuclear protein Ran/0.508
4q03GDPGTPase KRas/0.507
3th5GNPRas-related C3 botulinum toxin substrate 1/0.506
4lpkGDPGTPase KRas/0.506
1yu9GNPRas-related protein Rab-4A/0.505
4obeGDPGTPase KRas/0.505
4dxaGSPRas-related protein Rap-1b/0.503
1k5dGNPGTP-binding nuclear protein Ran/0.498
4ldjGDPGTPase KRas/0.497
2ce2GDPGTPase HRas/0.496
4q02GDPGTPase KRas/0.496
4lv6GDPGTPase KRas/0.495
1oixGDPRas-related protein Rab-11A/0.493
4lucGDPGTPase KRas/0.492
1zd9GDPADP-ribosylation factor-like protein 8A/0.490
3bc1GNPRas-related protein Rab-27A/0.484
1n6lGTPRas-related protein Rab-5A/0.483
2fg5GNPRas-related protein Rab-31/0.483
3lawGNPRas-related protein Rab-7a/0.483
5hpyGDPTransforming protein RhoA/0.481
4gzlGNPRas-related C3 botulinum toxin substrate 1/0.480
1d5cGDPGTPase (Rab6)/0.479
4uj5GNPRas-related protein Rab-11A/0.478
4wa7GDPGTPase KRas/0.478
1x1rGDPRas-related protein M-Ras/0.476
4dsuGDPGTPase KRas/0.474
2msdGNPMHC class I alpha chain/0.473
3qbtGNPRas-related protein Rab-8A/0.473
4gzmGSPRas-related C3 botulinum toxin substrate 1/0.473
3mjhGTPRas-related protein Rab-5A/0.470
4xoiGTPTransforming protein RhoA/0.469
4epwGDPGTPase KRas/0.468
5c46GSPRas-related protein Rab-11A/0.467
2cl6CAGGTPase HRas/0.465
1z2cGNPRho-related GTP-binding protein RhoC/0.462
4cidANPEH domain-containing protein 2/0.461
3x1wGDPRas-related protein Rap-1b/0.460
4o2rGDPGTP-binding protein Rheb/0.460
1culGSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.457
2q3fGNPRas-related GTP-binding protein D/0.456
5c1mCLRMu-type opioid receptor/0.456
1m2oGNPSmall COPII coat GTPase SAR13.6.50.455
1z2aGDPRas-related protein Rab-23/0.455
2bmeGNPRas-related protein Rab-4A/0.452
4uj3GNPRas-related protein Rab-11A/0.452
4lrwGDPGTPase KRas/0.449
4dvgGSPRho family GTPase/0.445
2mseGNPMHC class I alpha chain/0.444
4q0a4OAVitamin D3 receptor A/0.444
2o1xTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.442
3dr1C5DVitamin D3 receptor A/0.442
4paoGSPGuanine nucleotide-binding protein G(i) subunit alpha-1/0.442
3a783EVVitamin D3 receptor/0.440
3w0aDS5Vitamin D3 receptor/0.440