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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
4jd3COAAlpha-pyrone synthesis polyketide synthase-like Pks112.3.1

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4jd3COAAlpha-pyrone synthesis polyketide synthase-like Pks112.3.11.000
4jaqCOAAlpha-pyrone synthesis polyketide synthase-like Pks112.3.10.615
3wy0COAUncharacterized protein/0.567
4japCOAAlpha-pyrone synthesis polyketide synthase-like Pks112.3.10.549
3wxyCOAUncharacterized protein/0.541
1chwHXCChalcone synthase 22.3.1.740.510
4l3l5FIRibosomal protein S6 kinase beta-12.7.11.10.502
3wd7COAAcridone synthase/0.496
1ee0CAA2-pyrone synthase/0.493
3t2zFADSulfide-quinone reductase/0.482
1gufNDPEnoyl-[acyl-carrier-protein] reductase 1, mitochondrial1.3.1.100.481
2d3mCOA5,7-dihydroxy-2-methylchromone synthase2.3.1.2160.480
3tkh07SSerine/threonine-protein kinase Chk12.7.11.10.475
2rghFADAlpha-Glycerophosphate Oxidase/0.471
3stxBKAMethylketone synthase I/0.471
3syiFADSulfide-quinone reductase/0.468
1i7iAZ2Peroxisome proliferator-activated receptor gamma/0.464
4ri1ACOUDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine N-acetyltransferase2.3.1.2020.464
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.462
1ictT44Transthyretin/0.461
2r7b2533-phosphoinositide-dependent protein kinase 12.7.11.10.461
3oewNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.461
3t2yFADSulfide-quinone reductase/0.461
3vspEK8Peroxisome proliferator-activated receptor gamma/0.461
4nmdFDABifunctional protein PutA/0.461
4o0rX4ZSerine/threonine-protein kinase PAK 12.7.11.10.460
3da1FADGlycerol-3-phosphate dehydrogenase/0.459
3gfbNADL-threonine 3-dehydrogenase/0.459
4dpwAGSMevalonate diphosphate decarboxylase/0.459
4j6cSTRCytochrome P450 monooxygenase/0.458
1knuYPAPeroxisome proliferator-activated receptor gamma/0.457
4xldBRLPeroxisome proliferator-activated receptor gamma/0.457
5bsgNAPPyrroline-5-carboxylate reductase/0.457
1sj0E4DEstrogen receptor/0.456
2gtk208Peroxisome proliferator-activated receptor gamma/0.456
4bcrWY1Peroxisome proliferator-activated receptor alpha/0.454
1pr9NAPL-xylulose reductase1.1.1.100.453
2d52COA5,7-dihydroxy-2-methylchromone synthase2.3.1.2160.453
2qd4CHDFerrochelatase, mitochondrial4.99.1.10.453
3sz0FADSulfide-quinone reductase/0.453
4hee14RPeroxisome proliferator-activated receptor gamma/0.453
5dbfNDPIridoid synthase1.3.1.990.453
5emhNAPIridoid synthase1.3.1.990.453
1adcPADAlcohol dehydrogenase E chain1.1.1.10.452
2ym6YM6Serine/threonine-protein kinase Chk12.7.11.10.452
3bc3OPTCathepsin L13.4.22.150.452
3flkNAITartrate dehydrogenase/decarboxylase1.1.1.930.452
4jqh1MFAlr2278 protein/0.452
4uymVOR14-alpha sterol demethylase Cyp51B/0.452
3qwbNDPProbable quinone oxidoreductase1.6.5.50.451
3t14FADSulfide-quinone reductase/0.451
4nka2K7Fibroblast growth factor receptor 1/0.451
3poz03PEpidermal growth factor receptor2.7.10.10.450
3vjhJ35Peroxisome proliferator-activated receptor gamma/0.450
4bkz1WSMaternal embryonic leucine zipper kinase2.7.11.10.450
1cx2S58Prostaglandin G/H synthase 21.14.99.10.449
3tz3B36Acetyl-CoA carboxylase/0.449
4aw3MYVMycinamicin IV hydroxylase/epoxidase/0.449
2j3kNAPNADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.448
4e4qRRHPeroxisome proliferator-activated receptor gamma/0.448
2om9AJAPeroxisome proliferator-activated receptor gamma/0.447
3vtdTKDVitamin D3 receptor/0.447
4emaBRLPeroxisome proliferator-activated receptor gamma/0.447
4l2iFADElectron transfer flavoprotein alpha/beta-subunit/0.447
5dozNDPJamJ/0.447
1xkqNDPUncharacterized protein/0.446
2hwrDRDPeroxisome proliferator-activated receptor gamma/0.446
3d3wNAPL-xylulose reductase1.1.1.100.446
3h0aD30Peroxisome proliferator-activated receptor gamma/0.446
3t2kFADSulfide-quinone reductase/0.446
3v9v21LPeroxisome proliferator-activated receptor gamma/0.446
3we45FIRibosomal protein S6 kinase beta-12.7.11.10.446
6coxS58Prostaglandin G/H synthase 21.14.99.10.446
1mg5NAIAlcohol dehydrogenase1.1.1.10.445
1oc1ASVIsopenicillin N synthase1.21.3.10.445
1qaxHMG3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.880.445
3r6sCMPCRP-like cAMP-activated global transcriptional regulator/0.445
4e37NDPCatalase1.11.1.60.445
4ly91YYGlucokinase regulatory protein/0.445
2f4bEHAPeroxisome proliferator-activated receptor gamma/0.444
2nnhREACytochrome P450 2C8/0.444
3vhmNPKAvidin/0.444
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.444
4h3c0YZDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.444
2e9cB75Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.443
2fnaADPUncharacterized protein/0.443
2oorNADNAD(P) transhydrogenase subunit alpha part 11.6.1.20.443
4q71FADBifunctional protein PutA/0.443
1osvCHCBile acid receptor/0.442
2hxl422Serine/threonine-protein kinase Chk12.7.11.10.442
3r3sNADPutative oxidoreductase/0.442
5eoxADPType 4 fimbrial biogenesis protein PilM/0.442
5fl3ADPPili retraction protein PilT/0.442
1kzjCB3Thymidylate synthase/0.441
1vrwNAIEnoyl-ACP reductase/0.441
2hfpNSIPeroxisome proliferator-activated receptor gamma/0.441
3frqERYErythromycin resistance repressor protein/0.441
4bgiI4IEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.441
4kl9NDPDihydrofolate reductase1.5.1.30.441
5cmsAPRO-acetyl-ADP-ribose deacetylase/0.441
5itzLOCTubulin beta-2B chain/0.441
1aj8COACitrate synthase/0.440
2nq8ZIDEnoyl-ACP reductase/0.440
3zbnCOA3-ketoacyl-CoA thiolase-like protein/0.440
4b5pACOAlpha-tubulin N-acetyltransferase 1/0.440
4fj1NAP17beta-hydroxysteroid dehydrogenase/0.440
4jvf17XRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.440
4l3j5FIRibosomal protein S6 kinase beta-12.7.11.10.440
4qmnDB8Serine/threonine-protein kinase 242.7.11.10.440