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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
3stxBKAMethylketone synthase I

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3stxBKAMethylketone synthase I/1.000
3stv3HOMethylketone synthase I/0.610
3stw2TDMethylketone synthase I/0.566
3stuDK3Methylketone synthase I/0.481
1fm9570Peroxisome proliferator-activated receptor gamma/0.472
1osvCHCBile acid receptor/0.470
3a9wNADNDP-sugar epimerase/0.468
4bgePYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.465
4aw3MYVMycinamicin IV hydroxylase/epoxidase/0.464
4f9mFCMPeroxisome proliferator-activated receptor gamma/0.464
4g3jVNTLanosterol 14-alpha-demethylase/0.464
4l8u9AZSerum albumin/0.463
2f4bEHAPeroxisome proliferator-activated receptor gamma/0.462
2yyiFAD4-hydroxyphenylacetate 3-monooxygenase oxygenase component1.14.14.90.462
4rf2NAPNADPH dependent R-specific alcohol dehydrogenase/0.459
3cs8BRLPeroxisome proliferator-activated receptor gamma/0.458
2c7xNRBCytochrome P450 monooxygenase PikC/0.455
2cmvNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.455
4biiPYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.455
4r21STRCytochrome P450 family 17 polypeptide 2/0.455
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.454
2om9AJAPeroxisome proliferator-activated receptor gamma/0.454
3lu8IQXSerum albumin/0.453
1kzjCB3Thymidylate synthase/0.452
1mgoNADAlcohol dehydrogenase E chain1.1.1.10.451
2e9cB75Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.450
2vzmNRBCytochrome P450 monooxygenase PikC/0.450
4g7gVFVLanosterol 14-alpha-demethylase/0.449
3oct1N1Tyrosine-protein kinase BTK2.7.10.20.448
3zc3NAPFerredoxin--NADP reductase1.18.1.20.448
4ftaH5KSerine/threonine-protein kinase Chk12.7.11.10.448
4j6bPLOCytochrome P450 monooxygenase/0.448
2ca0PXICytochrome P450 monooxygenase PikC/0.447
2po7CHDFerrochelatase, mitochondrial4.99.1.10.447
3gw9VNILanosterol 14-alpha-demethylase/0.447
3iahNAPPutative oxoacyl-(Acyl carrier protein) reductase/0.447
3t2yFADSulfide-quinone reductase/0.447
4b13NHWGlycylpeptide N-tetradecanoyltransferase/0.447
4b7sQLECytochrome P450 monooxygenase PikC/0.447
4fr4STUSerine/threonine-protein kinase 32A2.7.11.10.447
4nr42LKCREB-binding protein/0.447
1fm4DXCMajor pollen allergen Bet v 1-L/0.446
2vxoXMPGMP synthase [glutamine-hydrolyzing]6.3.5.20.446
3ad9NADSubunit alpha of sarocosine oxidase/0.446
4b7dQLECytochrome P450 monooxygenase PikC/0.446
4l9q9TPSerum albumin/0.446
4nb6444Nuclear receptor ROR-gamma/0.446
4nmdFDABifunctional protein PutA/0.446
1i7iAZ2Peroxisome proliferator-activated receptor gamma/0.445
3vweCOAAlpha-tubulin N-acetyltransferase 1/0.445
4fsrHKCSerine/threonine-protein kinase Chk12.7.11.10.445
5koiNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.445
1gufNDPEnoyl-[acyl-carrier-protein] reductase 1, mitochondrial1.3.1.100.444
1tduCB3Thymidylate synthase/0.444
2bx8AZQSerum albumin/0.444
3em6017Gag-Pol polyprotein3.4.23.160.444
3kpkFADSulfide-quinone reductase/0.444
4r20AERCytochrome P450 family 17 polypeptide 2/0.444
1ot7CHCBile acid receptor/0.443
1ybmNAPUncharacterized protein At5g02240/0.443
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.443
2q4bNAPUncharacterized protein At5g02240/0.443
2x9dITCTetracycline repressor protein class D/0.443
2y98MIVMycinamicin IV hydroxylase/epoxidase/0.443
2yylFAD4-hydroxyphenylacetate 3-monooxygenase oxygenase component1.14.14.90.443
3a1nNADNDP-sugar epimerase/0.443
3icrCOACoenzyme A disulfide reductase/0.443
3icsCOACoenzyme A disulfide reductase/0.443
4nfsNAJAlcohol dehydrogenase E chain1.1.1.10.443
1qaxHMG3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.880.442
1qr0COA4'-phosphopantetheinyl transferase sfp2.7.80.442
1x8lOXRRetinol dehydratase/0.442
2hog710Serine/threonine-protein kinase Chk12.7.11.10.442
3d7kD7KBenzaldehyde lyase/0.442
3jynNDPQuinone oxidoreductase/0.442
3p6nDSOCamphor 5-monooxygenase1.14.15.10.442
4q71FADBifunctional protein PutA/0.442
4qe6JN3Bile acid receptor/0.442
5kjcNAJAlcohol dehydrogenase E chain1.1.1.10.442
1nvtNAPShikimate dehydrogenase (NADP(+))/0.441
1yb5NAPQuinone oxidoreductase1.6.5.50.441
2ahrNAPPyrroline-5-carboxylate reductase/0.441
3a1l2CCCytochrome P450/0.441
3h0sB38Acetyl-CoA carboxylase/0.441
3mdmFJZCholesterol 24-hydroxylase/0.441
3v9v21LPeroxisome proliferator-activated receptor gamma/0.441
5ijzNAPNADP-specific glutamate dehydrogenase1.4.1.40.441
1eupASD6-deoxyerythronolide B hydroxylase/0.440
2jbsFMNp-hydroxyphenylacetate 3-hydroxylase, oxygenase component/0.440
3bg7FADPyranose 2-oxidase/0.440
3h0aD30Peroxisome proliferator-activated receptor gamma/0.440
3i1fGCPTranslation initiation factor 2 subunit gamma/0.440
3rukAERSteroid 17-alpha-hydroxylase/17,20 lyase/0.440