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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
2zjuIM4Acetylcholine-binding protein

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2zjuIM4Acetylcholine-binding protein/1.000
3wtkTH4Acetylcholine-binding protein/0.598
3u8l09QAcetylcholine-binding protein/0.526
2ekaSAHDiphthine synthase/0.486
2xnvVU3Soluble acetylcholine receptor/0.483
2c29NAPDihydroflavonol 4-reductase/0.482
1q84TZ4Acetylcholinesterase3.1.1.70.480
2p2xSAHDiphthine synthase/0.478
4ubvCOASteroid 3-ketoacyl-CoA thiolase/0.477
2emrSAHDiphthine synthase/0.473
2eniSAHDiphthine synthase/0.473
4b5dSW4Achbp/0.473
2z6rSAHDiphthine synthase/0.470
2xytTC9Soluble acetylcholine receptor/0.469
3wtiCT4Acetylcholine-binding protein/0.469
2e17SAHDiphthine synthase/0.468
2ed5SAHDiphthine synthase/0.466
2ek3SAHDiphthine synthase/0.466
3u8k09PAcetylcholine-binding protein/0.466
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.465
2eleSAHDiphthine synthase/0.463
2pb4SAHDiphthine synthase/0.463
2pcmSAHDiphthine synthase/0.463
3lpkZ76Beta-secretase 13.4.23.460.462
4kxjP34Nucleoprotein/0.462
1x1bSAHC-20 methyltransferase/0.461
2e15SAHDiphthine synthase/0.461
2gjlFMNNitronate monooxygenase1.13.12.160.461
1x1cSAHC-20 methyltransferase/0.460
2xlrFADPutative flavin-containing monooxygenase/0.460
4bfsZVSPantothenate kinase2.7.1.330.460
2en5SAHDiphthine synthase/0.459
3wtjTH4Acetylcholine-binding protein/0.459
1pd9CO4Dihydrofolate reductase1.5.1.30.458
4xr9NADCalS8/0.458
1vceSAHDiphthine synthase/0.456
2vkeTACTetracycline repressor protein class D/0.456
2p6dSAHDiphthine synthase/0.455
1g63FMNEpidermin decarboxylase4.1.10.454
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.454
2hutSAHDiphthine synthase/0.454
3cic316Beta-secretase 13.4.23.460.454
2dv4SAHDiphthine synthase/0.453
2dxwSAHDiphthine synthase/0.453
2ek7SAHDiphthine synthase/0.453
2owkSAHDiphthine synthase/0.453
2eeqSAHDiphthine synthase/0.452
2ejzSAHDiphthine synthase/0.452
2fznFADBifunctional protein PutA1.5.5.20.452
2pcgSAHDiphthine synthase/0.452
1mvsDTMDihydrofolate reductase1.5.1.30.451
2dsiSAHDiphthine synthase/0.451
2emuSAHDiphthine synthase/0.451
3u8m09RAcetylcholine-binding protein/0.451
3w78CBDFMN-dependent NADH-azoreductase/0.451
4lxjLANLanosterol 14-alpha demethylase1.14.13.700.450
2nnlNAPDihydroflavonol 4-reductase1.1.1.2190.449
3akm11DFatty acid-binding protein, intestinal/0.449
4bfxZVXPantothenate kinase2.7.1.330.449
4dc0NDPPutative ketoacyl reductase1.3.10.449
4bfwZVWPantothenate kinase2.7.1.330.448
1dliUDXUDP-glucose 6-dehydrogenase/0.447
1eq2ADQADP-L-glycero-D-manno-heptose-6-epimerase/0.447
2b3dFADModulator of drug activity B/0.447
2g247IGRenin3.4.23.150.447
2y6fM9FIsopenicillin N synthase1.21.3.10.447
2ztvNADD(-)-3-hydroxybutyrate dehydrogenase/0.447
4irnFADAnaB/0.447
5bmvVLBTubulin alpha-1B chain/0.447
5bmvVLBTubulin beta chain/0.447
4zj8SUVOrexin receptor type 1/0.447
2e8qSAHDiphthine synthase/0.446
3f1kNAPUncharacterized oxidoreductase YciK10.446
4loi1YCStimulator of interferon genes protein/0.446
2gv8NDPThiol-specific monooxygenase1.14.130.445
2p83MR0Beta-secretase 13.4.23.460.445
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.445
3hl0NADMaleylacetate reductase/0.445
4bqh9VUUDP-N-acetylglucosamine pyrophosphorylase, putative/0.445
4dpy2P0Mevalonate diphosphate decarboxylase/0.445
1xs7MMIBeta-secretase 13.4.23.460.444
2wzySQXSoluble acetylcholine receptor/0.444
2yq92AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.444
3p3zP3ZPutative cytochrome P450/0.444
3u8n09SAcetylcholine-binding protein/0.444
4h3f10OBeta-secretase 13.4.23.460.444
5jscFADPutative acyl-CoA dehydrogenase/0.444
1cf3FADGlucose oxidase1.1.3.40.443
1h36R88Squalene--hopene cyclase4.2.1.1290.443
1u1gBBBUridine phosphorylase2.4.2.30.443
2vbdV10Isopenicillin N synthase1.21.3.10.443
4i6gFADCryptochrome-2/0.443
1bk0ACVIsopenicillin N synthase1.21.3.10.442
1s3uTQDDihydrofolate reductase1.5.1.30.442
1udbUFGUDP-glucose 4-epimerase5.1.3.20.442
2el0SAHDiphthine synthase/0.442
2fr1NDP6-deoxyerythronolide-B synthase EryA1, modules 1 and 2/0.442
3wthIM4Acetylcholine-binding protein/0.442
4eqrCOACoenzyme A disulfide reductase/0.442
1diuBDMDihydrofolate reductase1.5.1.30.441
1fapRAPPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.441
1fapRAPSerine/threonine-protein kinase mTOR2.7.11.10.441
1kbo340NAD(P)H dehydrogenase [quinone] 11.6.5.20.441
2g226IGRenin3.4.23.150.441
2hr8SAHDiphthine synthase/0.441
3jsxCC2NAD(P)H dehydrogenase [quinone] 11.6.5.20.441
3lpiZ74Beta-secretase 13.4.23.460.441
2dv7SAHDiphthine synthase/0.440
2e16SAHDiphthine synthase/0.440
2fhjH4ZFormylmethanofuran--tetrahydromethanopterin formyltransferase2.3.1.1010.440
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.440
2p6kSAHDiphthine synthase/0.440
2whqHI6Acetylcholinesterase3.1.1.70.440
3g70A5TRenin3.4.23.150.440
3ggs2FDPurine nucleoside phosphorylase2.4.2.10.440
4b1rITCTetracycline repressor protein class D/0.440