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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
2e7rSAHDiphthine synthase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2e7rSAHDiphthine synthase/1.000
2pcgSAHDiphthine synthase/0.872
2dxxSAHDiphthine synthase/0.853
2pb5SAHDiphthine synthase/0.835
2p5cSAHDiphthine synthase/0.834
2pckSAHDiphthine synthase/0.825
2pchSAHDiphthine synthase/0.801
2eleSAHDiphthine synthase/0.793
2ejkSAHDiphthine synthase/0.785
2p6dSAHDiphthine synthase/0.780
2p6iSAHDiphthine synthase/0.770
2eniSAHDiphthine synthase/0.764
2owgSAHDiphthine synthase/0.761
2dv7SAHDiphthine synthase/0.757
2ekaSAHDiphthine synthase/0.757
2eldSAHDiphthine synthase/0.756
2p5fSAHDiphthine synthase/0.754
2egsSAHDiphthine synthase/0.751
2el3SAHDiphthine synthase/0.749
2p9dSAHDiphthine synthase/0.743
2dv3SAHDiphthine synthase/0.742
2e8rSAHDiphthine synthase/0.742
2ehlSAHDiphthine synthase/0.737
2emrSAHDiphthine synthase/0.737
2dv5SAHDiphthine synthase/0.736
2dsiSAHDiphthine synthase/0.734
2egbSAHDiphthine synthase/0.734
2dxwSAHDiphthine synthase/0.726
2p2xSAHDiphthine synthase/0.725
2dxvSAHDiphthine synthase/0.724
2ek4SAHDiphthine synthase/0.715
2pcaSAHDiphthine synthase/0.710
2p6kSAHDiphthine synthase/0.708
2emuSAHDiphthine synthase/0.707
2pcmSAHDiphthine synthase/0.707
2eh5SAHDiphthine synthase/0.703
2dsgSAHDiphthine synthase/0.696
2e8sSAHDiphthine synthase/0.694
2e08SAHDiphthine synthase/0.688
2owkSAHDiphthine synthase/0.688
2ek3SAHDiphthine synthase/0.686
2e4nSAHDiphthine synthase/0.685
2huxSAHDiphthine synthase/0.685
2huvSAHDiphthine synthase/0.682
1vceSAHDiphthine synthase/0.678
2ed5SAHDiphthine synthase/0.677
2eh4SAHDiphthine synthase/0.674
2hutSAHDiphthine synthase/0.672
2e8qSAHDiphthine synthase/0.666
2dv4SAHDiphthine synthase/0.665
2dshSAHDiphthine synthase/0.663
1wngSAHDiphthine synthase/0.661
2huqSAHDiphthine synthase/0.661
2pb6SAHDiphthine synthase/0.661
2eh2SAHDiphthine synthase/0.660
2el0SAHDiphthine synthase/0.658
2pb4SAHDiphthine synthase/0.649
2ek7SAHDiphthine synthase/0.646
2hr8SAHDiphthine synthase/0.645
2eeqSAHDiphthine synthase/0.642
2eglSAHDiphthine synthase/0.639
2en5SAHDiphthine synthase/0.636
2e15SAHDiphthine synthase/0.634
2e8hSAHDiphthine synthase/0.631
2pciSAHDiphthine synthase/0.631
2e17SAHDiphthine synthase/0.628
2ejjSAHDiphthine synthase/0.621
2ek2SAHDiphthine synthase/0.621
2e07SAHDiphthine synthase/0.619
2owuSAHDiphthine synthase/0.616
2z6rSAHDiphthine synthase/0.612
2e16SAHDiphthine synthase/0.600
2p6lSAHDiphthine synthase/0.583
2ejzSAHDiphthine synthase/0.579
2owvSAHDiphthine synthase/0.574
2dekSAHDiphthine synthase/0.563
2owfSAHDiphthine synthase/0.556
2ed3SAHDiphthine synthase/0.552
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.485
4g7gVFVLanosterol 14-alpha-demethylase/0.479
3uozFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.477
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.471
1zeoC01Peroxisome proliferator-activated receptor gamma/0.470
3gw9VNILanosterol 14-alpha-demethylase/0.469
2xhd7T9Glutamate receptor 2/0.466
2bf4FMNNADPH--cytochrome P450 reductase/0.464
3ig6438Urokinase-type plasminogen activator3.4.21.730.464
1dirNADDihydropteridine reductase1.5.1.340.463
1xe55FEPlasmepsin-23.4.23.390.463
2g1s4IGRenin3.4.23.150.462
1f20FADNitric oxide synthase, brain1.14.13.390.460
4g2l0WLHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.460
4trnNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.460
4h3j10WBeta-secretase 13.4.23.460.458
1kkq471Peroxisome proliferator-activated receptor alpha/0.457
2qs3UBEGlutamate receptor ionotropic, kainate 1/0.457
2q5g1FAPeroxisome proliferator-activated receptor delta/0.456
3zh8C58Protein kinase C iota type2.7.11.130.456
5eb5FAD(R)-mandelonitrile lyase 14.1.2.100.456
2ztvNADD(-)-3-hydroxybutyrate dehydrogenase/0.455
3u9eCOALmo1369 protein/0.455
4wudANPDNA gyrase subunit B/0.455
1xe65FPPlasmepsin-23.4.23.390.454
2cgv3B3Serine/threonine-protein kinase Chk12.7.11.10.454
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.454
3slkNDPPolyketide synthase extender module 2/0.454
4djy0KRBeta-secretase 13.4.23.460.454
1lbcCYZGlutamate receptor 2/0.453
2pj4414Carboxypeptidase B/0.453
2wedPP6Penicillopepsin-13.4.23.200.453
2fgkATPAlpha-hemolysin translocation ATP-binding protein HlyB/0.452
2hk9NAPShikimate dehydrogenase (NADP(+))/0.452
3up5FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.452
2ifaFMNUncharacterized protein/0.451
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.450
3g70A5TRenin3.4.23.150.450
3vqsJT1Genome polyprotein/0.450
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.450
1bmfANPATP synthase subunit alpha, mitochondrial/0.449
1bmfANPATP synthase subunit beta, mitochondrial3.6.3.140.449
1pjcNADAlanine dehydrogenase/0.449
2znnS44Peroxisome proliferator-activated receptor alpha/0.449
3uoyFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.449
4b7754MBeta-secretase 13.4.23.460.449
4wriOKAOkadaic acid binding protein 2-alpha/0.448
1e1qANPATP synthase subunit alpha, mitochondrial/0.447
1e1qANPATP synthase subunit beta, mitochondrial3.6.3.140.447
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.447
1rv1IMZE3 ubiquitin-protein ligase Mdm26.3.20.447
1x1aSAMC-20 methyltransferase/0.447
2p83MR0Beta-secretase 13.4.23.460.447
2qbuSAHPrecorrin-2 methyltransferase/0.447
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.447
3so9017Pol protein/0.447
4pl0ANPMicrocin-J25 export ATP-binding/permease protein McjD/0.447
1jedADPSulfate adenylyltransferase/0.446
2clqSTUMitogen-activated protein kinase kinase kinase 52.7.11.250.446
2he5NDPAldo-keto reductase family 1 member C211.1.10.446
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.446
2qd3CHDFerrochelatase, mitochondrial4.99.1.10.446
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.446
2fgjATPAlpha-hemolysin translocation ATP-binding protein HlyB/0.445
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.445
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.445
4dpuAGSMevalonate diphosphate decarboxylase/0.445
4nbwNADShort-chain dehydrogenase/reductase SDR/0.445
1geeNADGlucose 1-dehydrogenase1.1.1.470.444
1qnfFADDeoxyribodipyrimidine photo-lyase4.1.99.30.444
1vikBAYGag-Pol polyprotein/0.444
1lsjNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.443
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.443
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.443
2uxoTACHTH-type transcriptional regulator TtgR/0.443
3vdqNAD3-hydroxybutyrate dehydrogenase/0.443
4bfzZVZPantothenate kinase2.7.1.330.443
4g3jVNTLanosterol 14-alpha-demethylase/0.443
1x1dSAHC-20 methyltransferase/0.442
2z7hGG3Geranylgeranyl pyrophosphate synthase/0.442
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.442
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.442
4a8v2ANMajor pollen allergen Bet v 1-J/0.442
4h3f10OBeta-secretase 13.4.23.460.442
4i1iNADMalate dehydrogenase/0.442
1qorNDPQuinone oxidoreductase 1/0.441
2iqgF2IBeta-secretase 13.4.23.460.441
3vt8YI3Vitamin D3 receptor/0.441
1pd9CO4Dihydrofolate reductase1.5.1.30.440
2hizLIJBeta-secretase 13.4.23.460.440
3a3gDLZLumazine protein/0.440
3f3sNADLambda-crystallin homolog/0.440
3vswR31Renin3.4.23.150.440