Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
4wa7GDPGTPase KRas

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4wa7GDPGTPase KRas/1.000
4l9sGDPGTPase HRas/0.674
4lpkGDPGTPase KRas/0.636
4epwGDPGTPase KRas/0.633
4lucGDPGTPase KRas/0.626
4l8gGDPGTPase KRas/0.625
4tq9GDPGTPase KRas/0.620
3kkqGDPRas-related protein M-Ras/0.615
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.611
4lv6GDPGTPase KRas/0.609
2rggGNPGTPase HRas/0.605
3k9lGNPGTPase HRas/0.604
2ce2GDPGTPase HRas/0.601
2mscGDPMHC class I alpha chain/0.601
4hdqGNPRas-related protein Rap-1b/0.599
3tgpGNPGTPase HRas/0.598
4q02GDPGTPase KRas/0.595
4q03GDPGTPase KRas/0.595
4ql3GDPGTPase KRas/0.593
4xvqGNPGTPase HRas/0.593
1xtrGNPGTP-binding protein Rheb/0.587
2rgeGNPGTPase HRas/0.587
3tsoGNPRas-related protein Rab-25/0.587
4obeGDPGTPase KRas/0.587
3oiuGNPGTPase HRas/0.581
1lfdGNPGTPase HRas/0.579
4nyiGNPGTPase HRas/0.578
4ldjGDPGTPase KRas/0.575
3qbtGNPRas-related protein Rab-8A/0.574
2fe4GDPRas-related protein Rab-6B/0.573
4nyjGNPGTPase HRas/0.571
3lbhGNPGTPase HRas/0.569
1zc4GNPRas-related protein Ral-A/0.568
3oiwGNPGTPase HRas/0.567
1x1rGDPRas-related protein M-Ras/0.566
3ddcGNPGTPase HRas/0.566
4dsnGCPGTPase KRas/0.564
4lrwGDPGTPase KRas/0.563
4o2rGDPGTP-binding protein Rheb/0.563
4epxGDPGTPase KRas/0.562
3i3sGNPGTPase HRas/0.560
2p2lGDPRas-related C3 botulinum toxin substrate 1/0.558
3pitGNPRas-related protein M-Ras/0.558
3kucGDPRas-related protein Rap-1A/0.557
3kkoGNPRas-related protein M-Ras/0.556
3oivGNPGTPase HRas/0.553
1uadGNPRas-related protein Ral-A/0.551
2rgcGNPGTPase HRas/0.551
3v4fGNPGTPase HRas/0.551
4xvrGNPGTPase HRas/0.551
3oesGNPGTPase RhebL1/0.550
4dlwGNPGTPase HRas/0.550
3x1zGNPRas-related protein Rap-1b/0.549
1cxzGSPTransforming protein RhoA/0.548
4g0nGNPGTPase HRas/0.548
1zc3GNPRas-related protein Ral-A/0.546
4k81GTPGTPase HRas/0.546
2rgbGNPGTPase HRas/0.545
5b2zGNPGTPase HRas/0.544
3lbiGNPGTPase HRas/0.543
3rs4GNPGTPase HRas/0.543
3sbdGNPRas-related C3 botulinum toxin substrate 1/0.543
3rs5GNPGTPase HRas/0.542
3cphGDPRas-related protein SEC4/0.541
1z2aGDPRas-related protein Rab-23/0.539
2cl6CAGGTPase HRas/0.539
2qmeGCPRas-related C3 botulinum toxin substrate 3/0.539
3lbnGNPGTPase HRas/0.539
2c5lGTPGTPase HRas/0.538
3w3zGTPGTP-binding nuclear protein Ran/0.538
1z0aGDPRas-related protein Rab-2A/0.535
3mjhGTPRas-related protein Rab-5A/0.535
1g17GNPRas-related protein SEC4/0.534
4lhwGNPRas-related protein Rab-8A/0.534
3l8yGNPGTPase HRas/0.532
2fg5GNPRas-related protein Rab-31/0.531
1e96GTPRas-related C3 botulinum toxin substrate 1/0.530
4dlxGNPGTPase HRas/0.530
2msdGNPMHC class I alpha chain/0.529
3k8yGNPGTPase HRas/0.528
1zbdGTPRas-related protein Rab-3A/0.527
1kmqGNPTransforming protein RhoA/0.526
3rs0GNPGTPase HRas/0.526
4dsuGDPGTPase KRas/0.526
3x1wGDPRas-related protein Rap-1b/0.522
4dlvGNPGTPase HRas/0.522
4rkfGNPRas-related protein Rab-3/0.522
5dhaGNPGTP-binding nuclear protein Ran/0.521
4dltGNPGTPase HRas/0.520
1yu9GNPRas-related protein Rab-4A/0.519
4dlzGNPGTPase HRas/0.519
2gcpGSPRho-related GTP-binding protein RhoC/0.517
3kudGDPGTPase HRas/0.517
2fjuGSPRas-related C3 botulinum toxin substrate 1/0.513
3a58GNPGTP-binding protein RHO1/0.513
4cidANPEH domain-containing protein 2/0.513
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.512
4uj5GNPRas-related protein Rab-11A/0.511
1n6lGTPRas-related protein Rab-5A/0.510
1yzqGNPRas-related protein Rab-6A/0.510
1m7bGTPRho-related GTP-binding protein RhoE/0.509
3rslGNPGTPase HRas/0.509
4qxaGTPRas-related protein Rab-9A/0.509
3ewsADPATP-dependent RNA helicase DDX19B3.6.4.130.508
4dxaGSPRas-related protein Rap-1b/0.508
3rs7GNPGTPase HRas/0.507
1g16GDPRas-related protein SEC4/0.506
1zd9GDPADP-ribosylation factor-like protein 8A/0.506
4dlsGNPGTPase HRas/0.506
1xtsGTPGTP-binding protein Rheb/0.505
1t91GTPRas-related protein Rab-7a/0.504
1ow3GDPTransforming protein RhoA/0.502
4o2lGTPGTP-binding protein Rheb/0.501
2bmeGNPRas-related protein Rab-4A/0.500
3e5hGNPRas-related protein Rab-28/0.498
4dsoGSPGTPase KRas/0.498
3tnfGNPRas-related protein Rab-8A/0.497
4uj3GNPRas-related protein Rab-11A/0.497
2ffqGSPRas-related protein Rab-6B/0.496
2zetGTPRas-related protein Rab-27B/0.495
2gilGTPRas-related protein Rab-6A/0.494
4l9wGNPGTPase HRas/0.494
4xoiGTPTransforming protein RhoA/0.494
1ibrGNPGTP-binding nuclear protein Ran/0.493
1s1cGNPTransforming protein RhoA/0.493
1oixGDPRas-related protein Rab-11A/0.491
4mitGTPRho-related protein racC/0.491
5c46GSPRas-related protein Rab-11A/0.491
1tu3GNPRas-related protein Rab-5A/0.490
2w2xGSPRas-related C3 botulinum toxin substrate 2/0.490
4hdoGNPRas-related protein Rap-1b/0.490
5hpyGDPTransforming protein RhoA/0.490
3bc1GNPRas-related protein Rab-27A/0.489
1a2bGSPTransforming protein RhoA/0.488
2ic5GDPRas-related C3 botulinum toxin substrate 3/0.488
2mseGNPMHC class I alpha chain/0.488
2q3fGNPRas-related GTP-binding protein D/0.488
1vg8GNPRas-related protein Rab-7a/0.486
3kz1GSPTransforming protein RhoA/0.486
3refGDPRho family GTPase/0.485
5difGNPGTP-binding nuclear protein Ran/0.485
2xtzGSPGuanine nucleotide-binding protein alpha-1 subunit/0.484
3k3bADPKinesin-like protein KIF11/0.484
3nbzGTPGTP-binding nuclear protein Ran/0.483
1d5cGDPGTPase (Rab6)/0.482
1ii6ADPKinesin-like protein KIF11/0.480
3akm11DFatty acid-binding protein, intestinal/0.479
3th5GNPRas-related C3 botulinum toxin substrate 1/0.477
3rabGNPRas-related protein Rab-3A/0.476
1yhnGTPRas-related protein Rab-7a/0.474
3a6pGTPGTP-binding nuclear protein Ran/0.474
3ea5GDPGTP-binding nuclear protein Ran/0.474
4o25GTPGTP-binding protein Rheb/0.474
2abjCBCBranched-chain-amino-acid aminotransferase, cytosolic2.6.1.420.473
5jljGNPGTP-binding nuclear protein Ran/0.472
2g0nGDPRas-related C3 botulinum toxin substrate 3/0.471
4d0lGSPRas-related protein Rab-11A/0.471
4js0GNPCell division control protein 42 homolog/0.471
3bbpGTPRas-related protein Rab-6A/0.470
3w2wATPCRISPR system Cmr subunit Cmr2/0.470
2iutAGSDNA translocase FtsK/0.469
1gwnGTPRho-related GTP-binding protein RhoE/0.467
1n83CLRNuclear receptor ROR-alpha/0.467
2ic5GNPRas-related C3 botulinum toxin substrate 3/0.467
4gzlGNPRas-related C3 botulinum toxin substrate 1/0.467
4jl5ADPAdenylate kinase/0.467
2nsd4PIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.466
4kvgGTPRas-related protein Rap-1A/0.466
3lawGNPRas-related protein Rab-7a/0.465
4itrGDPCell division control protein 42 homolog/0.465
1hk3T44Serum albumin/0.464
1rd4L08Integrin alpha-L/0.462
4kq2U5PGlycogen [starch] synthase isoform 22.4.1.110.461
2bkuGTPGTP-binding nuclear protein Ran/0.460
4jdcNADProbable pyrroline-5-carboxylate dehydrogenase RocA/0.459
4typAP5Adenylate kinase/0.459
1ht834CProstaglandin G/H synthase 11.14.99.10.458
1pd9CO4Dihydrofolate reductase1.5.1.30.458
3eg5GNPCell division control protein 42 homolog/0.458
1oc1ASVIsopenicillin N synthase1.21.3.10.457
1o01NADAldehyde dehydrogenase, mitochondrial1.2.1.30.456
4xg1LLPDiaminopimelate decarboxylase/0.456
5iu86DZAdenosine receptor A2a/0.456
1j7uANPAminoglycoside 3'-phosphotransferase2.7.1.950.455
1kquBR4Phospholipase A2, membrane associated/0.455
3fnhJPJEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.455
1mvtDTMDihydrofolate reductase1.5.1.30.454
1qiqACCIsopenicillin N synthase1.21.3.10.454
3sbeGNPRas-related C3 botulinum toxin substrate 1/0.454
2cvzNDP3-hydroxyisobutyrate dehydrogenase/0.453
3cobADPKinesin heavy chain-like protein/0.453
3mohGDPPhosphoenolpyruvate carboxykinase, cytosolic [GTP]4.1.1.320.453
4iwyADPRibosomal protein S6--L-glutamate ligase/0.453
2jb4A14Isopenicillin N synthase1.21.3.10.452
2vo4GTB2,4-D inducible glutathione S-transferase/0.451
3qiyQI1Botulinum neurotoxin type A3.4.24.690.451
4ma628EAra h 8 allergen/0.451
4panGDPGuanine nucleotide-binding protein G(i) subunit alpha-1/0.451
1i5bANPChemotaxis protein CheA2.7.13.30.450
1mzcBNEProtein farnesyltransferase subunit beta2.5.1.580.450
1xonPILcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.450
3pcrGTPADP-ribosylation factor 6/0.450
4mv1ADPBiotin carboxylase6.3.4.140.450
5iua6DXAdenosine receptor A2a/0.450
1s3uTQDDihydrofolate reductase1.5.1.30.449
1vyrFMNPentaerythritol tetranitrate reductase/0.449
3apwDP0Alpha-1-acid glycoprotein 2/0.449
3ntgD72Prostaglandin G/H synthase 21.14.99.10.449
1a4rGNHCell division control protein 42 homolog/0.448
1s0xC3SNuclear receptor ROR-alpha/0.448
1xddAAYIntegrin alpha-L/0.448
1z0dGDPRas-related protein Rab-5C/0.448
2clsGTPRho-related GTP-binding protein Rho6/0.448
3pn1IVHDNA ligase/0.448
4dzzADPPlasmid partitioning protein ParF/0.448
1eioGCHGastrotropin/0.447
1qyxASDEstradiol 17-beta-dehydrogenase 11.1.1.620.447
1x8lOXRRetinol dehydratase/0.447
3u33FADPutative acyl-CoA dehydrogenase AidB1.3.990.447
1mbzIOTCarboxyethyl-arginine beta-lactam-synthase6.3.3.40.446
3phiNDPShikimate dehydrogenase (NADP(+))/0.446
4ku3MYA3-oxoacyl-[ACP] synthase III/0.446
1r2jFADFkbI/0.445
2j0vGDPRac-like GTP-binding protein ARAC7/0.445
2qf2GDPPhosphoenolpyruvate carboxykinase, cytosolic [GTP]4.1.1.320.445
3umsGDPGuanine nucleotide-binding protein G(i) subunit alpha-1/0.445
2bu9HFVIsopenicillin N synthase1.21.3.10.444
2c94TSF6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.444
2gn4UD1UDP-N-acetylglucosamine 4,6-dehydratase (inverting)4.2.1.1150.444
2r2lPB9Protein farnesyltransferase subunit beta2.5.1.580.444
4d03NAPPhenylacetone monooxygenase1.14.13.920.444
5iotUMPFlavin-dependent thymidylate synthase2.1.1.1480.444
1pg3PRXAcetyl-coenzyme A synthetase/0.443
1qjfACSIsopenicillin N synthase1.21.3.10.443
2gv8FADThiol-specific monooxygenase1.14.130.443
3e32ED2Protein farnesyltransferase subunit beta2.5.1.580.443
3pvcFADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC/0.443
3tm5SFGUncharacterized protein/0.443
4l9kEHFSerum albumin/0.443
5iqiGNPBifunctional AAC/APH2.3.10.443
1am4GNPCell division control protein 42 homolog/0.442
1ia4TQ6Dihydrofolate reductase1.5.1.30.442
1kf6FADFumarate reductase flavoprotein subunit1.3.5.40.442
1xzqFONtRNA modification GTPase MnmE3.6.50.442
1yreCOAUncharacterized protein/0.442
2nq8ZIDEnoyl-ACP reductase/0.442
3ekuCY9Actin-5C/0.442
3vhxGTPADP-ribosylation factor 6/0.442
4fgcPQ0NADPH-dependent 7-cyano-7-deazaguanine reductase1.7.1.130.442
4gb90WRPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
1siqFADGlutaryl-CoA dehydrogenase, mitochondrial1.3.8.60.441
1v8kANPKinesin-like protein KIF2C/0.441
2b35TCLEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.441
3gwnFADProbable FAD-linked sulfhydryl oxidase R5961.8.3.20.441
3wyfGTPGTP-binding nuclear protein/0.441
4hfr14MCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.441
5fm7ADPRuvB-like helicase/0.441
5iu4ZMAAdenosine receptor A2a/0.441
1jcq739Protein farnesyltransferase subunit beta2.5.1.580.440
1k5dGNPGTP-binding nuclear protein Ran/0.440
2bktRPFRenin3.4.23.150.440
2qimZEAClass 10 plant pathogenesis-related protein/0.440
2vcmM11Isopenicillin N synthase1.21.3.10.440
2vhtATPNTPase P4/0.440
3fvqATPFe(3+) ions import ATP-binding protein FbpC/0.440
3p3zP3ZPutative cytochrome P450/0.440
3to3ATPPetrobactin biosynthesis protein AsbB/0.440
4ead0NPThymidine phosphorylase2.4.2.40.440
4mkhAP5Adenylate kinase/0.440
4u9zCOAAlpha-tubulin N-acetyltransferase 1/0.440