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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
2e08SAHDiphthine synthase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2e08SAHDiphthine synthase/1.000
2egbSAHDiphthine synthase/0.853
2p6iSAHDiphthine synthase/0.805
2owvSAHDiphthine synthase/0.731
2owuSAHDiphthine synthase/0.728
2egsSAHDiphthine synthase/0.725
2e8hSAHDiphthine synthase/0.723
2dshSAHDiphthine synthase/0.716
2pckSAHDiphthine synthase/0.714
2dxxSAHDiphthine synthase/0.708
2dekSAHDiphthine synthase/0.706
2eglSAHDiphthine synthase/0.701
2e7rSAHDiphthine synthase/0.696
2eeqSAHDiphthine synthase/0.691
2p5cSAHDiphthine synthase/0.691
2eleSAHDiphthine synthase/0.690
2p6dSAHDiphthine synthase/0.689
2eniSAHDiphthine synthase/0.688
2pb5SAHDiphthine synthase/0.685
2p2xSAHDiphthine synthase/0.682
2pcgSAHDiphthine synthase/0.677
2dsiSAHDiphthine synthase/0.675
2huqSAHDiphthine synthase/0.673
2dv7SAHDiphthine synthase/0.669
2dxwSAHDiphthine synthase/0.669
2ekaSAHDiphthine synthase/0.666
1vceSAHDiphthine synthase/0.664
2ejkSAHDiphthine synthase/0.662
2dxvSAHDiphthine synthase/0.660
2dv3SAHDiphthine synthase/0.659
2p9dSAHDiphthine synthase/0.658
2ejjSAHDiphthine synthase/0.654
2ehlSAHDiphthine synthase/0.652
2hr8SAHDiphthine synthase/0.650
2p6kSAHDiphthine synthase/0.649
2p5fSAHDiphthine synthase/0.648
2e16SAHDiphthine synthase/0.645
2pciSAHDiphthine synthase/0.642
2e15SAHDiphthine synthase/0.641
2ek3SAHDiphthine synthase/0.641
2ek7SAHDiphthine synthase/0.638
2p6lSAHDiphthine synthase/0.638
2emrSAHDiphthine synthase/0.637
2eldSAHDiphthine synthase/0.635
2dsgSAHDiphthine synthase/0.634
2eh4SAHDiphthine synthase/0.634
2pcmSAHDiphthine synthase/0.634
2dv4SAHDiphthine synthase/0.631
2e07SAHDiphthine synthase/0.631
2dv5SAHDiphthine synthase/0.627
2ed5SAHDiphthine synthase/0.625
2eh5SAHDiphthine synthase/0.625
2owkSAHDiphthine synthase/0.622
2el3SAHDiphthine synthase/0.621
2pchSAHDiphthine synthase/0.621
2pcaSAHDiphthine synthase/0.615
2e4nSAHDiphthine synthase/0.612
2e17SAHDiphthine synthase/0.610
2e8sSAHDiphthine synthase/0.610
1wngSAHDiphthine synthase/0.608
2en5SAHDiphthine synthase/0.608
2owgSAHDiphthine synthase/0.608
2e8rSAHDiphthine synthase/0.607
2emuSAHDiphthine synthase/0.603
2owfSAHDiphthine synthase/0.601
2el0SAHDiphthine synthase/0.600
2pb4SAHDiphthine synthase/0.597
2z6rSAHDiphthine synthase/0.595
2ek4SAHDiphthine synthase/0.584
2ed3SAHDiphthine synthase/0.583
2ejzSAHDiphthine synthase/0.582
2huvSAHDiphthine synthase/0.582
2huxSAHDiphthine synthase/0.576
2ek2SAHDiphthine synthase/0.573
2hutSAHDiphthine synthase/0.573
2e8qSAHDiphthine synthase/0.570
2eh2SAHDiphthine synthase/0.568
2pb6SAHDiphthine synthase/0.564
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.506
2xhd7T9Glutamate receptor 2/0.492
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.488
2y3sTIRTamL/0.488
4g7gVFVLanosterol 14-alpha-demethylase/0.485
1e7qNAPGDP-L-fucose synthase/0.478
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.476
1zeoC01Peroxisome proliferator-activated receptor gamma/0.472
4pl0ANPMicrocin-J25 export ATP-binding/permease protein McjD/0.470
4trnNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.470
1y0s331Peroxisome proliferator-activated receptor delta/0.468
1y4lSVRBasic phospholipase A2 homolog 2/0.468
2q5g1FAPeroxisome proliferator-activated receptor delta/0.468
2y65ADPKinesin heavy chain/0.467
2pnjCHDFerrochelatase, mitochondrial4.99.1.10.466
1dirNADDihydropteridine reductase1.5.1.340.463
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.463
1tqf32PBeta-secretase 13.4.23.460.462
2gjlFMNNitronate monooxygenase1.13.12.160.462
4wudANPDNA gyrase subunit B/0.462
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.461
5dqrFAD7-hydroxymethyl chlorophyll a reductase, chloroplastic1.17.7.20.461
4bc7FADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.460
3vn2TLSPeroxisome proliferator-activated receptor gamma/0.459
1g1aNADdTDP-glucose 4,6-dehydratase/0.458
4g3jVNTLanosterol 14-alpha-demethylase/0.458
4i8zG08Gag-Pol polyprotein3.4.23.160.458
1lbcCYZGlutamate receptor 2/0.457
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.456
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.456
5eb5FAD(R)-mandelonitrile lyase 14.1.2.100.456
1vp6CMPCyclic nucleotide-gated potassium channel mll3241/0.455
2wo7ASVIsopenicillin N synthase1.21.3.10.455
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.455
3gw9VNILanosterol 14-alpha-demethylase/0.455
4djy0KRBeta-secretase 13.4.23.460.455
1nvsUCMSerine/threonine-protein kinase Chk12.7.11.10.454
2b37NADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.454
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.454
4a83DXCMajor pollen allergen Bet v 1-A/0.454
4a8v2ANMajor pollen allergen Bet v 1-J/0.454
5hwsNAP2-dehydropantoate 2-reductase/0.454
1pjcNADAlanine dehydrogenase/0.453
1udaUFGUDP-glucose 4-epimerase5.1.3.20.453
1xe55FEPlasmepsin-23.4.23.390.453
2ztvNADD(-)-3-hydroxybutyrate dehydrogenase/0.453
3il1B5DGlutamate receptor 2/0.453
3nutSAHPrecorrin-3 methylase/0.453
3slkNDPPolyketide synthase extender module 2/0.452
1qiqACCIsopenicillin N synthase1.21.3.10.451
2clqSTUMitogen-activated protein kinase kinase kinase 52.7.11.250.451
3uozFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.451
4h3j10WBeta-secretase 13.4.23.460.451
4dh60KNBeta-secretase 13.4.23.460.450
4nbwNADShort-chain dehydrogenase/reductase SDR/0.450
5b1yNDP3-oxoacyl-[acyl-carrier-protein] reductase/0.450
1bmfANPATP synthase subunit alpha, mitochondrial/0.449
1bmfANPATP synthase subunit beta, mitochondrial3.6.3.140.449
1f8wFADNADH peroxidase1.11.1.10.449
1g63FMNEpidermin decarboxylase4.1.10.449
1kkq471Peroxisome proliferator-activated receptor alpha/0.449
2a94AP0L-lactate dehydrogenase1.1.1.270.449
2dftADPShikimate kinase2.7.1.710.449
2ou2ACOHistone acetyltransferase KAT5/0.449
2p5uNADUDP-glucose 4-epimerase/0.449
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.449
3up5FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.449
4egbNADdTDP-glucose 4,6-dehydratase/0.449
2d1yNADOxidoreductase, short-chain dehydrogenase/reductase family/0.448
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.448
3g5hYTTMycocyclosin synthase1.14.21.90.448
4f4dCHDFerrochelatase, mitochondrial4.99.1.10.448
5irnADPNucleotide binding oligomerization domain containing 2/0.448
1bk0ACVIsopenicillin N synthase1.21.3.10.447
1mj9COAHistone acetyltransferase ESA1/0.447
1phgMYTCamphor 5-monooxygenase1.14.15.10.447
1yb5NAPQuinone oxidoreductase1.6.5.50.447
2he5NDPAldo-keto reductase family 1 member C211.1.10.447
2iviACWIsopenicillin N synthase1.21.3.10.447
2q4bNAPUncharacterized protein At5g02240/0.447
2qd4CHDFerrochelatase, mitochondrial4.99.1.10.447
4dpy2P0Mevalonate diphosphate decarboxylase/0.447
4wucANPDNA gyrase subunit B/0.447
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.446
1x1aSAMC-20 methyltransferase/0.446
1x1cSAHC-20 methyltransferase/0.446
2ch6ADPN-acetyl-D-glucosamine kinase2.7.1.590.446
2uxoTACHTH-type transcriptional regulator TtgR/0.446
2vbdV10Isopenicillin N synthase1.21.3.10.446
3bc3OPTCathepsin L13.4.22.150.446
3kb1ADPIron-sulfur cluster carrier protein/0.446
3l9lL9LcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.446
4frkDWDBeta-secretase 13.4.23.460.446
4hbgNDP3-oxoacyl-[acyl-carrier-protein] reductase1.1.1.1000.446
1eh4IC1Casein kinase I homolog 12.7.11.10.445
1fm4DXCMajor pollen allergen Bet v 1-L/0.445
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.445
2rlcCHDCholoylglycine hydrolase3.5.1.240.445
3d84NDPDihydrofolate reductase1.5.1.30.445
3ijoB4DGlutamate receptor 2/0.445
3umvFADDeoxyribodipyrimidine photo-lyase4.1.99.30.445
3zoiM2WIsopenicillin N synthase1.21.3.10.445
5dp2NAPCurF/0.445
1qbgFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.444
2yyiFAD4-hydroxyphenylacetate 3-monooxygenase oxygenase component1.14.14.90.444
3mdmFJZCholesterol 24-hydroxylase/0.444
3sz0FADSulfide-quinone reductase/0.444
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.444
4h3g10QBeta-secretase 13.4.23.460.444
5fm7ADPRuvB-like helicase/0.444
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.443
1nyxDRFPeroxisome proliferator-activated receptor gamma/0.443
1u3dFADCryptochrome-1/0.443
1x1dSAHC-20 methyltransferase/0.443
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.443
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.443
2q1wNADPutative nucleotide sugar epimerase/ dehydratase/0.443
2y1tDUDSPBc2 prophage-derived deoxyuridine 5'-triphosphate nucleotidohydrolase YosS3.6.1.230.443
3i5zZ48Mitogen-activated protein kinase 12.7.11.240.443
3nbvANPKetohexokinase/0.443
3oibFDAPutative acyl-CoA dehydrogenase/0.443
3sp6IL2Peroxisome proliferator-activated receptor alpha/0.443
3zkyWT4Isopenicillin N synthase1.21.3.10.443
4dbzNDPPutative ketoacyl reductase1.3.10.443
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.443
4m83ERYOleandomycin glycosyltransferase2.4.10.443
4r21STRCytochrome P450 family 17 polypeptide 2/0.443
1dhrNADDihydropteridine reductase1.5.1.340.442
2znnS44Peroxisome proliferator-activated receptor alpha/0.442
3ixp834Ecdysone receptor/0.442
3orfNADDihydropteridine reductase1.5.1.340.442
4a312CBGlycylpeptide N-tetradecanoyltransferase/0.442
4acxS8ZBeta-secretase 13.4.23.460.442
1hbvGANGag-Pol polyprotein/0.441
1qorNDPQuinone oxidoreductase 1/0.441
1t2cNAIL-lactate dehydrogenase1.1.1.270.441
1u3cFADCryptochrome-1/0.441
1xe65FPPlasmepsin-23.4.23.390.441
2bu9HFVIsopenicillin N synthase1.21.3.10.441
3lqfNADGalactitol dehydrogenase/0.441
3qe2FMNNADPH--cytochrome P450 reductase/0.441
1x1bSAHC-20 methyltransferase/0.440
2givACOHistone acetyltransferase KAT8/0.440
2hk9NAPShikimate dehydrogenase (NADP(+))/0.440
2x0iNAIMalate dehydrogenase/0.440
2znpK55Peroxisome proliferator-activated receptor delta/0.440
3gwfNAPCyclohexanone monooxygenase/0.440
3r83Z14Cyclin-dependent kinase 22.7.11.220.440
3uoyFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.440
3vt8YI3Vitamin D3 receptor/0.440
3zh8C58Protein kinase C iota type2.7.11.130.440
4fw8NAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.440