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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
1exa394Retinoic acid receptor gamma

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1exa394Retinoic acid receptor gamma/1.000
1fcx184Retinoic acid receptor gamma/0.734
1fcy564Retinoic acid receptor gamma/0.712
4dm8REARetinoic acid receptor beta/0.645
4dm6TTBRetinoic acid receptor beta/0.618
2lbdREARetinoic acid receptor gamma/0.611
1fd0254Retinoic acid receptor gamma/0.595
1xdkREARetinoic acid receptor beta/0.592
3tdaPN0Cytochrome P450 2D6/0.492
3t8xT8XT-cell surface glycoprotein CD1b/0.481
4j6dTESCytochrome P450 monooxygenase/0.479
3qm4PN0Cytochrome P450 2D6/0.475
4j6cSTRCytochrome P450 monooxygenase/0.473
2fs4PZ1Renin3.4.23.150.471
5bp9SAHPutative methyltransferase protein/0.467
3jynNDPQuinone oxidoreductase/0.466
2e98B29Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.464
3gyuDL7Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.464
3abaFLICytochrome P450/0.460
2rjp886A disintegrin and metalloproteinase with thrombospondin motifs 43.4.24.820.459
4iaq2GM5-hydroxytryptamine receptor 1B/0.458
3ctj320Hepatocyte growth factor receptor2.7.10.10.457
3tfyCOAN-alpha-acetyltransferase 502.3.10.456
4lxjLANLanosterol 14-alpha demethylase1.14.13.700.456
1xu7CPSCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.455
3dl9V2HVitamin D 25-hydroxylase/0.455
3p6oETGCamphor 5-monooxygenase1.14.15.10.455
5irnADPNucleotide binding oligomerization domain containing 2/0.454
4cjx9L9C-1-tetrahydrofolate synthase, cytoplasmic, putative/0.452
1iyzNDPProbable quinone oxidoreductase/0.450
2e99B08Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.450
2g274LGRenin3.4.23.150.450
4gi2NAPCrotonyl-CoA carboxylase/reductase/0.449
2oiqSTIProto-oncogene tyrosine-protein kinase Src2.7.10.20.448
2ykiYKIHeat shock protein HSP 90-alpha/0.448
2v0mKLNCytochrome P450 3A4/0.447
3p6mDSOCamphor 5-monooxygenase1.14.15.10.447
4iarERM5-hydroxytryptamine receptor 1B/0.447
1o6qR17Squalene--hopene cyclase4.2.1.1290.446
3gytDL4Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.446
3qlhT27Gag-Pol polyprotein2.7.7.490.446
4if5ACOAlpha-tubulin N-acetyltransferase 1/0.446
1o6rR19Squalene--hopene cyclase4.2.1.1290.445
2culFADGidA-related protein/0.445
2e48FADD-amino-acid oxidase1.4.3.30.445
3uzcT4EAdenosine receptor A2a/0.445
1h35R01Squalene--hopene cyclase4.2.1.1290.444
1jomFFODihydrofolate reductase1.5.1.30.444
2a4nCOAAac(6')-Ii protein/0.444
1pkfEPDEpothilone C/D epoxidase1.140.443
3qv1NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic1.2.1.130.443
4g1nNZTPyruvate kinase PKM2.7.1.400.443
4nc3ERM5-hydroxytryptamine receptor 2B/0.443
1bk0ACVIsopenicillin N synthase1.21.3.10.442
4g310WHEukaryotic translation initiation factor 2-alpha kinase 32.7.11.10.442
1jraFADFAD-linked sulfhydryl oxidase ERV21.8.3.20.441
1pd9CO4Dihydrofolate reductase1.5.1.30.441
3up3XCAaceDAF-12/0.441
4j6bPLOCytochrome P450 monooxygenase/0.440