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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
2eleSAHDiphthine synthase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2eleSAHDiphthine synthase/1.000
2ehlSAHDiphthine synthase/0.835
2e8rSAHDiphthine synthase/0.830
2p6dSAHDiphthine synthase/0.825
2pcgSAHDiphthine synthase/0.817
2e7rSAHDiphthine synthase/0.804
2ekaSAHDiphthine synthase/0.786
2owkSAHDiphthine synthase/0.778
2eh2SAHDiphthine synthase/0.776
2emrSAHDiphthine synthase/0.774
2eh5SAHDiphthine synthase/0.743
2el3SAHDiphthine synthase/0.741
2eniSAHDiphthine synthase/0.736
2owgSAHDiphthine synthase/0.733
2pcmSAHDiphthine synthase/0.732
2egbSAHDiphthine synthase/0.731
2eldSAHDiphthine synthase/0.730
2ejkSAHDiphthine synthase/0.725
2dxxSAHDiphthine synthase/0.717
2emuSAHDiphthine synthase/0.714
2huvSAHDiphthine synthase/0.714
2dxvSAHDiphthine synthase/0.713
2egsSAHDiphthine synthase/0.709
2hutSAHDiphthine synthase/0.701
2p5cSAHDiphthine synthase/0.701
2p5fSAHDiphthine synthase/0.699
2dxwSAHDiphthine synthase/0.698
2dv7SAHDiphthine synthase/0.695
2pckSAHDiphthine synthase/0.695
2e08SAHDiphthine synthase/0.693
2pb5SAHDiphthine synthase/0.691
2ek4SAHDiphthine synthase/0.686
2pchSAHDiphthine synthase/0.686
2e4nSAHDiphthine synthase/0.680
2ek3SAHDiphthine synthase/0.674
2e8sSAHDiphthine synthase/0.671
2p2xSAHDiphthine synthase/0.668
2p9dSAHDiphthine synthase/0.667
2dv5SAHDiphthine synthase/0.665
2p6kSAHDiphthine synthase/0.662
1vceSAHDiphthine synthase/0.658
2dv3SAHDiphthine synthase/0.654
2ek7SAHDiphthine synthase/0.653
2hr8SAHDiphthine synthase/0.653
2pb6SAHDiphthine synthase/0.648
2huxSAHDiphthine synthase/0.646
2dsgSAHDiphthine synthase/0.644
2p6iSAHDiphthine synthase/0.644
2pcaSAHDiphthine synthase/0.641
2ed5SAHDiphthine synthase/0.639
2pb4SAHDiphthine synthase/0.638
2dsiSAHDiphthine synthase/0.637
2ek2SAHDiphthine synthase/0.636
2pciSAHDiphthine synthase/0.635
2e8qSAHDiphthine synthase/0.632
2eglSAHDiphthine synthase/0.625
2e16SAHDiphthine synthase/0.624
2dv4SAHDiphthine synthase/0.622
2huqSAHDiphthine synthase/0.620
2e15SAHDiphthine synthase/0.612
2el0SAHDiphthine synthase/0.607
2en5SAHDiphthine synthase/0.604
1wngSAHDiphthine synthase/0.600
2eh4SAHDiphthine synthase/0.596
2e8hSAHDiphthine synthase/0.594
2owvSAHDiphthine synthase/0.591
2dekSAHDiphthine synthase/0.583
2e17SAHDiphthine synthase/0.570
2z6rSAHDiphthine synthase/0.569
2ejzSAHDiphthine synthase/0.566
2owfSAHDiphthine synthase/0.564
2owuSAHDiphthine synthase/0.560
2p6lSAHDiphthine synthase/0.554
2dshSAHDiphthine synthase/0.550
2ejjSAHDiphthine synthase/0.534
2e07SAHDiphthine synthase/0.531
2eeqSAHDiphthine synthase/0.525
2ed3SAHDiphthine synthase/0.515
4g3jVNTLanosterol 14-alpha-demethylase/0.477
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.476
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.468
3gw9VNILanosterol 14-alpha-demethylase/0.466
4g7gVFVLanosterol 14-alpha-demethylase/0.466
1vikBAYGag-Pol polyprotein/0.465
1xddAAYIntegrin alpha-L/0.465
1xe55FEPlasmepsin-23.4.23.390.465
1lbcCYZGlutamate receptor 2/0.463
2y1tDUDSPBc2 prophage-derived deoxyuridine 5'-triphosphate nucleotidohydrolase YosS3.6.1.230.462
3a3gDLZLumazine protein/0.462
1h69FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.460
2y3sTIRTamL/0.460
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.460
2znnS44Peroxisome proliferator-activated receptor alpha/0.460
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.460
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.459
3vqsJT1Genome polyprotein/0.459
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.459
4wriOKAOkadaic acid binding protein 2-alpha/0.459
5eb5FAD(R)-mandelonitrile lyase 14.1.2.100.459
1dirNADDihydropteridine reductase1.5.1.340.458
2gjlFMNNitronate monooxygenase1.13.12.160.458
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.458
2ovhAS0Progesterone receptor/0.457
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.457
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.456
4trnNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.456
1e1qANPATP synthase subunit alpha, mitochondrial/0.455
1e1qANPATP synthase subunit beta, mitochondrial3.6.3.140.455
1j1zATPArgininosuccinate synthase/0.455
1rfuADPPyridoxal kinase2.7.1.350.455
1bmfANPATP synthase subunit alpha, mitochondrial/0.454
1bmfANPATP synthase subunit beta, mitochondrial3.6.3.140.454
2qbuSAHPrecorrin-2 methyltransferase/0.454
3umpATPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.454
4eakATP5'-AMP-activated protein kinase subunit gamma-1/0.454
2q5g1FAPeroxisome proliferator-activated receptor delta/0.453
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.453
3dylIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.453
3ik6HCZGlutamate receptor 2/0.453
1f20FADNitric oxide synthase, brain1.14.13.390.452
2pj4414Carboxypeptidase B/0.452
1xe65FPPlasmepsin-23.4.23.390.451
2hrcCHDFerrochelatase, mitochondrial4.99.1.10.451
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.451
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.451
4zjuNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.451
1cf3FADGlucose oxidase1.1.3.40.450
1hdrNADDihydropteridine reductase1.5.1.340.450
1y7lASN_LEU_ASN_ILECysteine synthase2.5.1.470.450
2qd4CHDFerrochelatase, mitochondrial4.99.1.10.450
2y4gTIRTamL/0.450
4ipw1G7Mycocyclosin synthase1.14.21.90.450
5dqrFAD7-hydroxymethyl chlorophyll a reductase, chloroplastic1.17.7.20.450
1o97FADElectron transfer flavoprotein subunit alpha/0.449
4g2l0WLHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.449
4hbm0Y7E3 ubiquitin-protein ligase Mdm26.3.20.449
1g63FMNEpidermin decarboxylase4.1.10.448
1phgMYTCamphor 5-monooxygenase1.14.15.10.448
2ifaFMNUncharacterized protein/0.448
2y3rTRKTamL/0.448
4asuADPATP synthase subunit alpha, mitochondrial/0.448
4dx9SER_ALA_VAL_THRIntegrin beta-1/0.448
4dx9SER_ALA_VAL_THRIntegrin beta-1-binding protein 1/0.448
1kkq471Peroxisome proliferator-activated receptor alpha/0.447
1mjaCOAHistone acetyltransferase ESA1/0.447
2a94AP0L-lactate dehydrogenase1.1.1.270.447
2ft9CHDFatty acid-binding protein 2, liver/0.447
3ig6438Urokinase-type plasminogen activator3.4.21.730.447
3zh8C58Protein kinase C iota type2.7.11.130.447
2aqkNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.446
1n49RITGag-Pol polyprotein3.4.23.160.445
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.445
3nksACJProtoporphyrinogen oxidase1.3.3.40.445
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.444
3eheNADUDP-glucose 4-epimerase (GalE-1)/0.444
4bfxZVXPantothenate kinase2.7.1.330.444
4ig01FGGag-Pol polyprotein2.7.7.490.444
4wudANPDNA gyrase subunit B/0.444
1obnASVIsopenicillin N synthase1.21.3.10.443
2zvcSAHPrecorrin-3 C17-methyltransferase/0.443
3uozFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.443
4ktl1CQCytochrome P450/0.443
4uymVOR14-alpha sterol demethylase Cyp51B/0.443
5b1yNDP3-oxoacyl-[acyl-carrier-protein] reductase/0.443
1bim0QBRenin3.4.23.150.442
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.442
2ahrNAPPyrroline-5-carboxylate reductase/0.442
2b53D23Cyclin-dependent kinase 22.7.11.220.442
2fgjATPAlpha-hemolysin translocation ATP-binding protein HlyB/0.442
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.442
2p5uNADUDP-glucose 4-epimerase/0.442
2qs3UBEGlutamate receptor ionotropic, kainate 1/0.442
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.442
3s1dZIRCytokinin dehydrogenase 11.5.99.120.442
4e5yNDPGDP-L-fucose synthase1.1.1.2710.442
2fgkATPAlpha-hemolysin translocation ATP-binding protein HlyB/0.441
3uoyFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.441
4dpuAGSMevalonate diphosphate decarboxylase/0.441
4mqy2CWUDP-3-O-acyl-N-acetylglucosamine deacetylase/0.441
1bwsNDPGDP-L-fucose synthase/0.440
1bxoPP7Penicillopepsin-13.4.23.200.440
1u3cFADCryptochrome-1/0.440
1vp6CMPCyclic nucleotide-gated potassium channel mll3241/0.440
1x1aSAMC-20 methyltransferase/0.440
2ien017Gag-Pol polyprotein3.4.23.160.440
4i1iNADMalate dehydrogenase/0.440
4ips1G4Mycocyclosin synthase1.14.21.90.440
4djhJDCKappa-type opioid receptor/0.440