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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
3f883HTGlycogen synthase kinase-3 beta2.7.11.26

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3f883HTGlycogen synthase kinase-3 beta2.7.11.261.000
4achKDIGlycogen synthase kinase-3 beta2.7.11.260.596
4afjSJJGlycogen synthase kinase-3 beta2.7.11.260.569
3l1sZ92Glycogen synthase kinase-3 beta2.7.11.260.567
4acdGR9Glycogen synthase kinase-3 beta2.7.11.260.565
4acg6LQGlycogen synthase kinase-3 beta2.7.11.260.562
4acc7YGGlycogen synthase kinase-3 beta2.7.11.260.553
3zrkZRKGlycogen synthase kinase-3 beta2.7.11.260.535
1r0eDFNGlycogen synthase kinase-3 beta2.7.11.260.532
3f7z34OGlycogen synthase kinase-3 beta2.7.11.260.525
2ow3BIMGlycogen synthase kinase-3 beta2.7.11.260.521
3du8553Glycogen synthase kinase-3 beta2.7.11.260.521
3sayOFTGlycogen synthase kinase-3 beta2.7.11.260.519
4b7tCWTGlycogen synthase kinase-3 beta2.7.11.260.519
1q5kTMUGlycogen synthase kinase-3 beta2.7.11.260.517
3gb2G3BGlycogen synthase kinase-3 beta2.7.11.260.516
3zrmZRMGlycogen synthase kinase-3 beta2.7.11.260.516
3pjcPJCTyrosine-protein kinase JAK32.7.10.20.514
4dit0KDGlycogen synthase kinase-3 beta2.7.11.260.514
1q41IXMGlycogen synthase kinase-3 beta2.7.11.260.513
1uv5BRWGlycogen synthase kinase-3 beta2.7.11.260.512
1pyxANPGlycogen synthase kinase-3 beta2.7.11.260.510
2jedLG8Protein kinase C theta type2.7.11.130.509
4i22IREEpidermal growth factor receptor2.7.10.10.502
3i4bZ48Glycogen synthase kinase-3 beta2.7.11.260.501
3dtcVINMitogen-activated protein kinase kinase kinase 92.7.11.250.497
3q3b55EGlycogen synthase kinase-3 beta2.7.11.260.497
4oacADPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.496
1yi4ADNSerine/threonine-protein kinase pim-12.7.11.10.491
2bikBI1Serine/threonine-protein kinase pim-12.7.11.10.491
4j711JXGlycogen synthase kinase-3 beta2.7.11.260.491
3sd0TSKGlycogen synthase kinase-3 beta2.7.11.260.489
4bchT7ZCyclin-dependent kinase 92.7.11.220.489
4lmuQUESerine/threonine-protein kinase pim-12.7.11.10.488
4bgg844Activin receptor type-12.7.11.300.487
3cy3JN5Serine/threonine-protein kinase pim-12.7.11.10.482
4nm0ADPGlycogen synthase kinase-3 beta2.7.11.260.482
2o65MYFSerine/threonine-protein kinase pim-12.7.11.10.481
4dymIYZActivin receptor type-12.7.11.300.481
2bilBI1Serine/threonine-protein kinase pim-12.7.11.10.480
4dfn0K1Tyrosine-protein kinase SYK2.7.10.20.479
4n702HXSerine/threonine-protein kinase pim-12.7.11.10.479
1szmBI4cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.478
3oom507Activin receptor type-12.7.11.300.478
2itpAEEEpidermal growth factor receptor2.7.10.10.476
3c4eC4ESerine/threonine-protein kinase pim-12.7.11.10.476
3l9nL9NcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.476
4k0y1OASerine/threonine-protein kinase pim-12.7.11.10.475
3l9lL9LcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.474
4lm5Q17Serine/threonine-protein kinase pim-12.7.11.10.474
3a25SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase/0.473
3zrlZRLGlycogen synthase kinase-3 beta2.7.11.260.473
3u9n09HSerine/threonine-protein kinase Chk12.7.11.10.471
4othDRNSerine/threonine-protein kinase N1/0.470
1q4l679Glycogen synthase kinase-3 beta2.7.11.260.469
2ojg19AMitogen-activated protein kinase 12.7.11.240.469
3iw4LW4Protein kinase C alpha type2.7.11.130.469
3a60STURibosomal protein S6 kinase beta-12.7.11.10.467
1yi3LY2Serine/threonine-protein kinase pim-12.7.11.10.465
3blrCPBCyclin-dependent kinase 92.7.11.220.465
3bgqVX2Serine/threonine-protein kinase pim-12.7.11.10.464
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.464
5dgzL20Serine/threonine-protein kinase pim-12.7.11.10.464
4c02TAKActivin receptor type-12.7.11.300.463
4i0t1B6Tyrosine-protein kinase SYK2.7.10.20.463
3mtfA3FActivin receptor type-12.7.11.300.462
3poz03PEpidermal growth factor receptor2.7.10.10.462
4j1rI5RGlycogen synthase kinase-3 beta2.7.11.260.462
4jvlESTEstrogen sulfotransferase2.8.2.40.462
2j2iLY4Serine/threonine-protein kinase pim-12.7.11.10.461
3mfsANPPeripheral plasma membrane protein CASK2.7.11.10.461
3vf9477Tyrosine-protein kinase SYK2.7.10.20.461
4l521ULMitogen-activated protein kinase kinase kinase 72.7.11.250.461
1mq4ADPAurora kinase A2.7.11.10.460
2wotZZGTGF-beta receptor type-12.7.11.300.460
4jq7KJQEpidermal growth factor receptor2.7.10.10.460
4mbl26LSerine/threonine-protein kinase pim-12.7.11.10.460
4dreNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.459
3bgpVX1Serine/threonine-protein kinase pim-12.7.11.10.458
3vs4VSFTyrosine-protein kinase HCK2.7.10.20.457
4egnTWOCytochrome P450/0.457
4fl3ANPTyrosine-protein kinase SYK2.7.10.20.457
3sp9IL2Peroxisome proliferator-activated receptor delta/0.456
4jq8KJ8Epidermal growth factor receptor2.7.10.10.456
2c3kABOSerine/threonine-protein kinase Chk12.7.11.10.455
2cgw3C3Serine/threonine-protein kinase Chk12.7.11.10.455
3adaNADSubunit alpha of sarocosine oxidase/0.455
3uicNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.455
4hyi1AOSerine/threonine-protein kinase Chk12.7.11.10.455
1yhsSTUSerine/threonine-protein kinase pim-12.7.11.10.453
2ev9NAPShikimate dehydrogenase (NADP(+))/0.453
2znq401Peroxisome proliferator-activated receptor delta/0.453
3jpv1DRSerine/threonine-protein kinase pim-12.7.11.10.453
3vbq0F5Serine/threonine-protein kinase pim-12.7.11.10.453
4k181OBSerine/threonine-protein kinase pim-12.7.11.10.453
1zeoC01Peroxisome proliferator-activated receptor gamma/0.452
3w18N13Aurora kinase A2.7.11.10.452
4jboWPHAurora kinase A2.7.11.10.452
2bfyH1NAurora kinase B-A2.7.11.10.451
3bgzVX3Serine/threonine-protein kinase pim-12.7.11.10.451
3gwfFADCyclohexanone monooxygenase/0.451
3l9mL9McAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.451
1xkkFMMEpidermal growth factor receptor2.7.10.10.450
3arvSAUChitinase A/0.450
3of2NADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.450
4a6nFADTetX family tetracycline inactivation enzyme/0.450
1fdwESTEstradiol 17-beta-dehydrogenase 11.1.1.620.449
1u59STUTyrosine-protein kinase ZAP-702.7.10.20.449
1xwsBI1Serine/threonine-protein kinase pim-12.7.11.10.449
3k5uPFQAurora kinase A2.7.11.10.449
4nm5ADPGlycogen synthase kinase-3 beta2.7.11.260.449
1pmeSB2Mitogen-activated protein kinase 12.7.11.240.448
1q1rFADPutidaredoxin reductase1.18.1.50.448
3cy2MB9Serine/threonine-protein kinase pim-12.7.11.10.448
3r02UNMSerine/threonine-protein kinase pim-12.7.11.10.448
4eevL1XHepatocyte growth factor receptor2.7.10.10.448
4hvh19RTyrosine-protein kinase JAK32.7.10.20.448
4kuhCAA3-hydroxybutyryl-CoA dehydrogenase/0.448
5dp2NAPCurF/0.448
1enyNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.447
4gmy0X5Tyrosine-protein kinase JAK2/0.447
4nm7ADPGlycogen synthase kinase-3 beta2.7.11.260.447
5e8wSTUTGF-beta receptor type-12.7.11.300.447
1mj3HXCEnoyl-CoA hydratase, mitochondrial4.2.1.170.446
1x8lOXRRetinol dehydratase/0.446
2c3iIYZSerine/threonine-protein kinase pim-12.7.11.10.446
2pr2DG1Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.446
2qmzLDPRibosyldihydronicotinamide dehydrogenase [quinone]/0.446
3efwAK8Aurora kinase A2.7.11.10.446
4knzCB3Thymidylate synthase/0.446
4ks8B49Serine/threonine-protein kinase PAK 62.7.11.10.446
4zirANPEnergy-coupling factor transporter ATP-binding protein EcfA23.6.30.446
4zirANPEnergy-coupling factor transporter ATP-binding protein EcfA1/0.446
1eh4IC1Casein kinase I homolog 12.7.11.10.445
1n83CLRNuclear receptor ROR-alpha/0.445
1piwNAPNADP-dependent alcohol dehydrogenase 61.1.1.20.445
1y2c3DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.445
2hk9NAPShikimate dehydrogenase (NADP(+))/0.445
3uixQ17Serine/threonine-protein kinase pim-12.7.11.10.445
3vs5VSGTyrosine-protein kinase HCK2.7.10.20.445
3vs6VSHTyrosine-protein kinase HCK2.7.10.20.445
4dpuAGSMevalonate diphosphate decarboxylase/0.445
4u97STUInterleukin-1 receptor-associated kinase 42.7.11.10.445
4xx9ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.445
1bygSTUTyrosine-protein kinase CSK/0.444
1h1r6CPCyclin-dependent kinase 22.7.11.220.444
1wsvTHHAminomethyltransferase, mitochondrial/0.444
1x2hLPALipoate-protein ligase A6.3.1.200.444
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.444
2e9uA25Serine/threonine-protein kinase Chk12.7.11.10.444
2x86ADPADP-L-glycero-D-manno-heptose-6-epimerase/0.444
3ddqRRCCyclin-dependent kinase 22.7.11.220.444
4eufNADTrans-2-enoyl-CoA reductase [NADH]/0.444
2aqhNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.443
3eb0DRKUncharacterized protein/0.443
3hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.443
3lj3WYEPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
3mfrANPPeripheral plasma membrane protein CASK2.7.11.10.443
4b7xNAPProbable oxidoreductase/0.443
4i0s1B5Tyrosine-protein kinase SYK2.7.10.20.443
2broDF2Serine/threonine-protein kinase Chk12.7.11.10.442
2jdvL20cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.442
3ielU5PRibonuclease TTHA02523.10.442
3oeyNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
3sgx0FWDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.442
3zdiUGJGlycogen synthase kinase-3 beta2.7.11.260.442
1fm7DFVChalcone--flavonone isomerase 15.5.1.60.441
1lp4ANPCasein kinase II subunit alpha2.7.11.10.441
2dq7STUTyrosine-protein kinase Fyn2.7.10.20.441
2y6o1N1Ephrin type-A receptor 42.7.10.10.441
4idtT28Mitogen-activated protein kinase kinase kinase 142.7.11.250.441
2chlDKICasein kinase I isoform gamma-32.7.11.10.440
2qd3CHDFerrochelatase, mitochondrial4.99.1.10.440
2zjwREFCasein kinase II subunit alpha2.7.11.10.440
4bf2STUMitogen-activated protein kinase kinase kinase 52.7.11.250.440
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
5cvhADPCasein kinase II subunit alpha2.7.11.10.440