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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
1p6xTHMThymidine kinase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1p6xTHMThymidine kinase/1.000
1p72THMThymidine kinase/0.757
5jqhCAUBeta-2 adrenergic receptor/0.496
4jln18VDeoxycytidine kinase2.7.1.740.493
3g45988cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.490
3u9fCLMChloramphenicol acetyltransferase2.3.1.280.490
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.487
3ny8JRZBeta-2 adrenergic receptor/0.479
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.477
1ygkRRCPyridoxal kinase2.7.1.350.476
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.476
2wu4HBPAcetylcholinesterase3.1.1.70.472
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.472
5c1gGDUHisto-blood group ABO system transferase/0.472
2xuoTZ4Acetylcholinesterase3.1.1.70.471
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.471
2jj8AZZDeoxynucleoside kinase/0.470
4n3r2GUTankyrase-12.4.2.300.470
2gywOBIAcetylcholinesterase3.1.1.70.467
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.467
4l5b1UXDeoxycytidine kinase2.7.1.740.466
1y2k7DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.464
5c1mCLRMu-type opioid receptor/0.464
2j3qTFLAcetylcholinesterase3.1.1.70.461
2vqsBVDDeoxynucleoside kinase/0.461
2w6cBM4Acetylcholinesterase3.1.1.70.460
4j8tDOGUncharacterized PhzA/B-like protein PA3332/0.460
4s0vSUVOrexin receptor type 2/0.460
1xl8152Peroxisomal carnitine O-octanoyltransferase2.3.1.1370.459
4g2l0WLHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.459
4amiG90Beta-1 adrenergic receptor/0.459
3d4sTIMBeta-2 adrenergic receptor/0.459
3r7mSUZAldo-keto reductase family 1 member C3/0.458
1pq6965Oxysterols receptor LXR-beta/0.457
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.457
1icqOPD12-oxophytodienoate reductase 11.3.1.420.456
1r5gAO1Methionine aminopeptidase 2/0.456
3nyaJTZBeta-2 adrenergic receptor/0.456
2xuiTZ5Acetylcholinesterase3.1.1.70.455
3frkTQPQdtB/0.455
3pqbVGPPutative oxidoreductase/0.455
4a322CDGlycylpeptide N-tetradecanoyltransferase/0.455
4iarERM5-hydroxytryptamine receptor 1B/0.455
1zg32HIIsoflavone 4'-O-methyltransferase/0.454
2zi53L1Deoxycytidine kinase2.7.1.740.454
4zj8SUVOrexin receptor type 1/0.454
1amoFADNADPH--cytochrome P450 reductase/0.453
2cbqTH2Neocarzinostatin/0.453
2gyuHI6Acetylcholinesterase3.1.1.70.452
2xi4AFTAcetylcholinesterase3.1.1.70.452
3sqzCOAPutative hydroxymethylglutaryl-CoA synthase/0.452
1y2e5DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.451
2xuqTZ4Acetylcholinesterase3.1.1.70.451
3a25SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase/0.450
3gmd2M3Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.450
3ihgVAKAklavinone 12-hydroxylase RdmE/0.450
4kxjP34Nucleoprotein/0.450
4zzi1NSNAD-dependent protein deacetylase sirtuin-13.5.10.450
2ociTYCValacyclovir hydrolase3.10.449
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.448
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.448
4jlm1NNDeoxycytidine kinase2.7.1.740.448
5d6lCAUBeta-2 adrenergic receptor/0.448
3dys5GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.447
4a6rTA8Probable aminotransferase/0.447
4bfuZVUPantothenate kinase2.7.1.330.447
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.447
4arbC57Acetylcholinesterase3.1.1.70.446
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.446
4n9qFMNFMN-dependent NADH-azoreductase 1/0.446
1fduESTEstradiol 17-beta-dehydrogenase 11.1.1.620.445
2rqfJH3Hemolymph juvenile hormone binding protein/0.445
2ycwCAUBeta-1 adrenergic receptor/0.445
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.445
3ziaADPATP synthase subunit beta, mitochondrial3.6.3.140.445
2ycxP32Beta-1 adrenergic receptor/0.445
1ejbINJ6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.444
3fznD7KBenzoylformate decarboxylase4.1.1.70.444
3ou2SAHSAM-dependent methyltransferase/0.444
4n1fCZHObelin/0.444
3ny9JSZBeta-2 adrenergic receptor/0.444
1o6qR17Squalene--hopene cyclase4.2.1.1290.443
5d5bCAUBeta-2 adrenergic receptor/0.443
3k3ePDBHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.442
3pm1ETHTH-type transcriptional regulator QacR/0.442
4da0GNGPurine nucleoside phosphorylase DeoD-type2.4.2.10.442
1y2c3DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441
2qimZEAClass 10 plant pathogenesis-related protein/0.441
3vi5M4MHematopoietic prostaglandin D synthase/0.441
5a8eXTKBeta-1 adrenergic receptor/0.441
1w4lGL8Acetylcholinesterase3.1.1.70.440
1zgaHMKIsoflavone 4'-O-methyltransferase/0.440
2aovC2MHistamine N-methyltransferase2.1.1.80.440
2xuhTZ4Acetylcholinesterase3.1.1.70.440
3fcoIIGCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.440
3uweVJJAldo-keto reductase family 1 member C3/0.440
4bj9UHBTankyrase-22.4.2.300.440