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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
3epxIMQIAG-nucleoside hydrolase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3epxIMQIAG-nucleoside hydrolase/1.000
3d4sTIMBeta-2 adrenergic receptor/0.492
5d5aCAUBeta-2 adrenergic receptor/0.477
4mr72BVGamma-aminobutyric acid type B receptor subunit 1/0.475
1wkgPOI[LysW]-aminoadipate semialdehyde transaminase/0.474
2y01Y00Beta-1 adrenergic receptor/0.473
3ojwFMNNADPH--cytochrome P450 reductase/0.473
1kicNOSIAG-nucleoside hydrolase/0.472
2hzqSTRApolipoprotein D/0.471
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.470
2yczI32Beta-1 adrenergic receptor/0.470
5a8eXTKBeta-1 adrenergic receptor/0.468
4amiG90Beta-1 adrenergic receptor/0.467
1wkhPPE[LysW]-aminoadipate semialdehyde transaminase/0.466
2zu9GDPMannosyl-3-phosphoglycerate synthase2.4.1.2170.466
4af7FADFerredoxin--NADP reductase, leaf isozyme, chloroplastic1.18.1.20.466
2ycxP32Beta-1 adrenergic receptor/0.464
2r7nADP5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase/0.463
3b9gIMHIAG-nucleoside hydrolase/0.462
1jcq739Protein farnesyltransferase subunit beta2.5.1.580.460
4bvnP32Beta-1 adrenergic receptor/0.460
5jqhCAUBeta-2 adrenergic receptor/0.460
3c49KU8Poly [ADP-ribose] polymerase 32.4.2.300.458
5f8uP32Beta-1 adrenergic receptor/0.458
2y02WHJBeta-1 adrenergic receptor/0.457
4e32DWNMethyltransferase/0.457
3ppkFNISerine/threonine-protein kinase B-raf2.7.11.10.456
4b2gV1NUncharacterized protein/0.456
4gbrCAUBeta-2 adrenergic receptor/0.456
1xf0ASDAldo-keto reductase family 1 member C3/0.455
3geyP34Poly [ADP-ribose] polymerase 152.4.2.300.455
3n0hTOPDihydrofolate reductase1.5.1.30.455
3aivHBO4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase, chloroplastic3.2.1.1820.454
4amjCVDBeta-1 adrenergic receptor/0.454
1amoFMNNADPH--cytochrome P450 reductase/0.453
4da7AC2Purine nucleoside phosphorylase DeoD-type2.4.2.10.453
5ds309LPoly [ADP-ribose] polymerase 12.4.2.300.453
4o9cCOAAcetyl-CoA acetyltransferase2.3.1.90.452
1sweBTNStreptavidin/0.451
2fm5M99cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.451
3c1kT15Prothrombin3.4.21.50.451
3qe2FMNNADPH--cytochrome P450 reductase/0.451
4bjbP34Tankyrase-22.4.2.300.451
2rc6FADFerredoxin--NADP reductase/0.450
2vt4P32Beta-1 adrenergic receptor/0.450
3mhpFADFerredoxin--NADP reductase, leaf isozyme, chloroplastic1.18.1.20.450
4iarERM5-hydroxytryptamine receptor 1B/0.450
5d6lCAUBeta-2 adrenergic receptor/0.450
4ldeP0GBeta-2 adrenergic receptor/0.450
2aot2PMHistamine N-methyltransferase2.1.1.80.449
2ql6TIZNicotinamide riboside kinase 1/0.449
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.449
4ldlXQCBeta-2 adrenergic receptor/0.449
1oxoIK2Aspartate aminotransferase, mitochondrial2.6.1.10.448
1ta6177Prothrombin3.4.21.50.448
2ipiAKYAclacinomycin-N/aclacinomycin-A oxidase/0.448
2xupTZ5Acetylcholinesterase3.1.1.70.448
3b82NADExotoxin A2.4.2.360.448
3f3y4OABile salt sulfotransferase2.8.2.140.448
3ou2SAHSAM-dependent methyltransferase/0.448
2y0468HBeta-1 adrenergic receptor/0.448
2nmtMIMGlycylpeptide N-tetradecanoyltransferase2.3.1.970.447
4hf415HcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.447
1ejbINJ6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.446
2w6cBM4Acetylcholinesterase3.1.1.70.446
3f90FMNFlavodoxin/0.446
3hmvHBTcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.446
1i7cMGBS-adenosylmethionine decarboxylase proenzyme4.1.1.500.445
1pj6FOLDimethylglycine oxidase1.5.3.100.445
2y1w849Histone-arginine methyltransferase CARM1/0.445
3aiqHBO4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase 1b, chloroplastic3.2.1.1820.445
3ndjJHZMethyltransferase/0.445
3uyk0CXProbable NDP-rhamnosyltransferase/0.445
4b7zQ4QAcetylcholinesterase3.1.1.70.445
4iae1DXAlr2278 protein/0.445
1c9wNAPAldose reductase-related protein 2/0.444
1q84TZ4Acetylcholinesterase3.1.1.70.444
3hl0NADMaleylacetate reductase/0.444
1ld8U49Protein farnesyltransferase subunit beta2.5.1.580.443
1q23FUAChloramphenicol acetyltransferase2.3.1.280.443
1u65CP0Acetylcholinesterase3.1.1.70.443
2cn0F25Prothrombin3.4.21.50.443
2ha6SCKAcetylcholinesterase3.1.1.70.443
3cuiX4SExoglucanase/xylanase3.2.1.910.443
4c2z646Glycylpeptide N-tetradecanoyltransferase 1/0.443
2cleF6FTryptophan synthase alpha chain/0.442
3ou6SAMSAM-dependent methyltransferase/0.442
2pbwDOQGlutamate receptor ionotropic, kainate 1/0.441
3gsiTHGDimethylglycine oxidase1.5.3.100.441
3pqbVGPPutative oxidoreductase/0.441
4a30QMIGlycylpeptide N-tetradecanoyltransferase/0.441
4rh10TTSpore photoproduct lyase/0.441
1sg0STLRibosyldihydronicotinamide dehydrogenase [quinone]/0.440
2v5uFMNFlavodoxin/0.440
3arvSAUChitinase A/0.440
3jsxCC2NAD(P)H dehydrogenase [quinone] 11.6.5.20.440
3qeoLLTDeoxycytidine kinase2.7.1.740.440
3tfjTHGDimethylsulfonioproprionate demethylase DmdA2.1.1.2690.440
4kn0MTXFolate receptor beta/0.440
4m0f1YKAcetylcholinesterase3.1.1.70.440