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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
1vg8GNPRas-related protein Rab-7a

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1vg8GNPRas-related protein Rab-7a/1.000
1t91GTPRas-related protein Rab-7a/0.661
1yzqGNPRas-related protein Rab-6A/0.652
2gilGTPRas-related protein Rab-6A/0.638
3bbpGTPRas-related protein Rab-6A/0.629
1yhnGTPRas-related protein Rab-7a/0.625
2ffqGSPRas-related protein Rab-6B/0.619
3e5hGNPRas-related protein Rab-28/0.619
3oesGNPGTPase RhebL1/0.612
4o25GTPGTP-binding protein Rheb/0.601
1zbdGTPRas-related protein Rab-3A/0.593
5dhaGNPGTP-binding nuclear protein Ran/0.590
2fe4GDPRas-related protein Rab-6B/0.589
3ea5GDPGTP-binding nuclear protein Ran/0.581
3w3zGTPGTP-binding nuclear protein Ran/0.580
2x19GTPGTP-binding nuclear protein GSP1/CNR1/0.574
3bc1GNPRas-related protein Rab-27A/0.574
5jljGNPGTP-binding nuclear protein Ran/0.569
4cymGCPRas-related protein Rab-32/0.566
1xtrGNPGTP-binding protein Rheb/0.562
3lawGNPRas-related protein Rab-7a/0.561
4qxaGTPRas-related protein Rab-9A/0.553
1xtsGTPGTP-binding protein Rheb/0.552
2zetGTPRas-related protein Rab-27B/0.546
2bkuGTPGTP-binding nuclear protein Ran/0.543
3tklGTPRas-related protein Rab-1A/0.541
3a6pGTPGTP-binding nuclear protein Ran/0.538
1g17GNPRas-related protein SEC4/0.537
4rkfGNPRas-related protein Rab-3/0.529
3nbzGTPGTP-binding nuclear protein Ran/0.525
1k5dGNPGTP-binding nuclear protein Ran/0.524
3rabGNPRas-related protein Rab-3A/0.524
4dltGNPGTPase HRas/0.524
1ibrGNPGTP-binding nuclear protein Ran/0.521
2c5lGTPGTPase HRas/0.515
1e96GTPRas-related C3 botulinum toxin substrate 1/0.513
3lbnGNPGTPase HRas/0.513
3rs5GNPGTPase HRas/0.511
3tsoGNPRas-related protein Rab-25/0.511
3kudGDPGTPase HRas/0.508
4kvgGTPRas-related protein Rap-1A/0.508
4ol0GTPGTP-binding nuclear protein Ran/0.507
3oivGNPGTPase HRas/0.504
4lhwGNPRas-related protein Rab-8A/0.504
3a58GNPGTP-binding protein RHO1/0.503
3ddcGNPGTPase HRas/0.501
3tnfGNPRas-related protein Rab-8A/0.501
4dlwGNPGTPase HRas/0.499
5difGNPGTP-binding nuclear protein Ran/0.495
4hdoGNPRas-related protein Rap-1b/0.490
1zc3GNPRas-related protein Ral-A/0.489
1kmqGNPTransforming protein RhoA/0.487
1oixGDPRas-related protein Rab-11A/0.486
3i3sGNPGTPase HRas/0.486
3cphGDPRas-related protein SEC4/0.484
3v4fGNPGTPase HRas/0.484
2oapANPType II secretion system protein (GspE-2)/0.483
3oiuGNPGTPase HRas/0.483
4k81GTPGTPase HRas/0.483
4nyjGNPGTPase HRas/0.483
2rgeGNPGTPase HRas/0.481
4mitGTPRho-related protein racC/0.481
3kkoGNPRas-related protein M-Ras/0.480
1a2bGSPTransforming protein RhoA/0.479
5b2zGNPGTPase HRas/0.479
1cxzGSPTransforming protein RhoA/0.478
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.478
3l8yGNPGTPase HRas/0.478
1z2cGNPRho-related GTP-binding protein RhoC/0.477
4nyiGNPGTPase HRas/0.477
1zc4GNPRas-related protein Ral-A/0.476
3eg5GNPCell division control protein 42 homolog/0.474
3th5GNPRas-related C3 botulinum toxin substrate 1/0.473
4js0GNPCell division control protein 42 homolog/0.472
3kucGDPRas-related protein Rap-1A/0.471
3x1zGNPRas-related protein Rap-1b/0.471
4uj3GNPRas-related protein Rab-11A/0.471
3rs7GNPGTPase HRas/0.470
2gcpGSPRho-related GTP-binding protein RhoC/0.468
4tyqAP5Adenylate kinase/0.467
3pitGNPRas-related protein M-Ras/0.465
2rgbGNPGTPase HRas/0.463
2rgcGNPGTPase HRas/0.462
4dlsGNPGTPase HRas/0.462
3wygGTPGTP-binding nuclear protein GSP1/CNR1/0.460
1s1cGNPTransforming protein RhoA/0.458
5c46GSPRas-related protein Rab-11A/0.456
2bbwGP5Adenylate kinase 4, mitochondrial/0.455
3rslGNPGTPase HRas/0.455
4dsoGSPGTPase KRas/0.455
4gzmGSPRas-related C3 botulinum toxin substrate 1/0.455
4lutDCSAlanine racemase/0.454
1ow3GDPTransforming protein RhoA/0.453
1zd9GDPADP-ribosylation factor-like protein 8A/0.453
4ohxADPProtein clpf-1/0.453
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.451
3ekuCY9Actin-5C/0.451
3kjiADPCO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC/0.451
4asuADPATP synthase subunit alpha, mitochondrial/0.451
4qbfAP5Adenylate kinase/0.451
1oxoIK2Aspartate aminotransferase, mitochondrial2.6.1.10.450
3oiwGNPGTPase HRas/0.450
3rs0GNPGTPase HRas/0.450
1i5cADPChemotaxis protein CheA2.7.13.30.449
3kz1GSPTransforming protein RhoA/0.449
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.449
4dxaGSPRas-related protein Rap-1b/0.449
4dsnGCPGTPase KRas/0.448
4du82P0Mevalonate diphosphate decarboxylase/0.448
4eywL0RCarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.448
2a1hGBNBranched-chain-amino-acid aminotransferase, mitochondrial2.6.1.420.447
3lbhGNPGTPase HRas/0.447
3rs4GNPGTPase HRas/0.447
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.446
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.446
4cvmANPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase/0.446
4dlxGNPGTPase HRas/0.446
4dlvGNPGTPase HRas/0.445
5hpyGDPTransforming protein RhoA/0.444
4uj5GNPRas-related protein Rab-11A/0.443
3dys5GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.442
3iqhTYR_ASP_ILECysteine synthase2.5.1.470.442
4dlzGNPGTPase HRas/0.442
4eagATP5'-AMP-activated protein kinase subunit gamma-1/0.442
4xoiGTPTransforming protein RhoA/0.442
5k5zANPUncharacterized protein/0.442
1w5sADPORC1-type DNA replication protein 2/0.441
2clsGTPRho-related GTP-binding protein Rho6/0.441
4o2lGTPGTP-binding protein Rheb/0.441
3zvmADPBifunctional polynucleotide phosphatase/kinase2.7.1.780.440
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.440
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.440
4gv08MEPoly [ADP-ribose] polymerase 32.4.2.300.440