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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
3e5hGNPRas-related protein Rab-28

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3e5hGNPRas-related protein Rab-28/1.000
2ffqGSPRas-related protein Rab-6B/0.582
2gilGTPRas-related protein Rab-6A/0.577
3bbpGTPRas-related protein Rab-6A/0.568
1t91GTPRas-related protein Rab-7a/0.565
1yhnGTPRas-related protein Rab-7a/0.561
1yzqGNPRas-related protein Rab-6A/0.555
2fe4GDPRas-related protein Rab-6B/0.542
4o25GTPGTP-binding protein Rheb/0.540
3oesGNPGTPase RhebL1/0.531
4cymGCPRas-related protein Rab-32/0.530
2zetGTPRas-related protein Rab-27B/0.527
1vg8GNPRas-related protein Rab-7a/0.514
5dhaGNPGTP-binding nuclear protein Ran/0.514
1zc3GNPRas-related protein Ral-A/0.504
3rabGNPRas-related protein Rab-3A/0.503
1zbdGTPRas-related protein Rab-3A/0.501
3bc1GNPRas-related protein Rab-27A/0.501
1xtsGTPGTP-binding protein Rheb/0.500
3nbzGTPGTP-binding nuclear protein Ran/0.495
4qxaGTPRas-related protein Rab-9A/0.493
3tsoGNPRas-related protein Rab-25/0.488
3ea5GDPGTP-binding nuclear protein Ran/0.486
4lhwGNPRas-related protein Rab-8A/0.486
1kmqGNPTransforming protein RhoA/0.481
1g17GNPRas-related protein SEC4/0.480
1xtrGNPGTP-binding protein Rheb/0.475
4nyiGNPGTPase HRas/0.475
4kvgGTPRas-related protein Rap-1A/0.473
1zc4GNPRas-related protein Ral-A/0.472
3w3zGTPGTP-binding nuclear protein Ran/0.471
3cphGDPRas-related protein SEC4/0.469
4nyjGNPGTPase HRas/0.469
3a6pGTPGTP-binding nuclear protein Ran/0.466
5jljGNPGTP-binding nuclear protein Ran/0.465
3a58GNPGTP-binding protein RHO1/0.464
3lbnGNPGTPase HRas/0.462
3oiuGNPGTPase HRas/0.461
3tklGTPRas-related protein Rab-1A/0.461
4rkfGNPRas-related protein Rab-3/0.460
3kucGDPRas-related protein Rap-1A/0.457
1lfdGNPGTPase HRas/0.453
1k5dGNPGTP-binding nuclear protein Ran/0.451
3ddcGNPGTPase HRas/0.449
3l8yGNPGTPase HRas/0.448
1oixGDPRas-related protein Rab-11A/0.445
1e96GTPRas-related C3 botulinum toxin substrate 1/0.444
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.443
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.443
2gcpGSPRho-related GTP-binding protein RhoC/0.440
3v4fGNPGTPase HRas/0.440