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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
4n57ADPAPH(2'')-Id

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
4n57ADPAPH(2'')-Id/1.000
4dt9GMPAPH(2'')-Id/0.525
4dtaADNAPH(2'')-Id/0.524
4xlvACPInsulin receptor2.7.10.10.507
4qmlANPSerine/threonine-protein kinase 242.7.11.10.504
1mruAGSSerine/threonine-protein kinase PknB2.7.11.10.503
1i44ACPInsulin receptor2.7.10.10.502
1j1cADPGlycogen synthase kinase-3 beta2.7.11.260.500
3orpAGSSerine/threonine protein kinase/0.499
4lfiGNPCasein kinase II subunit alpha2.7.11.10.492
4ysjADPCalmodulin-like domain protein kinase/0.489
1qcfPP1Tyrosine-protein kinase HCK2.7.10.20.487
4k8aK8AFocal adhesion kinase 12.7.10.20.486
4bfmANPMaternal embryonic leucine zipper kinase2.7.11.10.484
3c4wATPRhodopsin kinase/0.483
3ormAGSSerine/threonine protein kinase/0.483
5dnrATPAurora kinase A2.7.11.10.483
3qc9ADPRhodopsin kinase/0.482
4fg8ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.482
4qpmADPMitotic checkpoint serine/threonine-protein kinase BUB12.7.11.10.482
4wh3ATPN-acetylhexosamine 1-kinase2.7.1.1620.482
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.481
3p23ADPSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.10.481
5eg3ACPFibroblast growth factor receptor 2/0.481
2xuuADPDeath-associated protein kinase 12.7.11.10.480
3c4zADPRhodopsin kinase/0.480
4jia1K3Tyrosine-protein kinase JAK2/0.480
4pl4ADPSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.10.478
4xx9ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.478
1ai9NDPDihydrofolate reductase1.5.1.30.477
3gu7ADPDeath-associated protein kinase 12.7.11.10.475
3my5RFZCyclin-dependent kinase 22.7.11.220.475
3igoANPCalmodulin-domain protein kinase 1, putative/0.474
4rqkATP3-phosphoinositide-dependent protein kinase 12.7.11.10.474
4bl1ANPMaternal embryonic leucine zipper kinase2.7.11.10.473
1gjvAGS[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial2.7.11.40.472
3gu5ANPDeath-associated protein kinase 12.7.11.10.472
3nszANPCasein kinase II subunit alpha2.7.11.10.472
2yaaATPDeath-associated protein kinase 2/0.471
3f69XDRSerine/threonine-protein kinase PknB2.7.11.10.471
4btjATPTau-tubulin kinase 12.7.11.10.471
3cgfJNFMitogen-activated protein kinase 102.7.11.240.470
3q9xEMOCasein kinase II subunit alpha2.7.11.10.470
4ct2ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.470
4wh2ADPN-acetylhexosamine 1-kinase2.7.1.1620.470
1o6yACPSerine/threonine-protein kinase PknB2.7.11.10.469
5dn3ATPAurora kinase A2.7.11.10.469
2b7aIZATyrosine-protein kinase JAK2/0.468
4yhjAN2G protein-coupled receptor kinase 42.7.11.160.468
2b9jADPMitogen-activated protein kinase FUS32.7.11.240.467
4dn5AGSMitogen-activated protein kinase kinase kinase 142.7.11.250.467
4mcv29KProto-oncogene tyrosine-protein kinase Src2.7.10.20.467
5dr2ATPAurora kinase A2.7.11.10.467
3lltANPProtein serine/threonine kinase-1/0.466
4jr7GNPCasein kinase II subunit alpha2.7.11.10.466
1jkkANPDeath-associated protein kinase 12.7.11.10.465
2dwbANPAurora kinase A2.7.11.10.465
5dosATPAurora kinase A2.7.11.10.465
1cqp803Integrin alpha-L/0.464
1xddAAYIntegrin alpha-L/0.464
2biyATP3-phosphoinositide-dependent protein kinase 12.7.11.10.464
2phkATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform2.7.11.190.464
4fg7ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.464
4gvjADPNon-receptor tyrosine-protein kinase TYK22.7.10.20.464
4jqeANPCasein kinase II subunit alpha2.7.11.10.464
5dmzADPMitotic checkpoint serine/threonine-protein kinase BUB12.7.11.10.464
2bkkADPAminoglycoside 3'-phosphotransferase2.7.1.950.463
2ijmATPFocal adhesion kinase 12.7.10.20.463
3c50ADPRhodopsin kinase/0.463
3qd03Q43-phosphoinositide-dependent protein kinase 12.7.11.10.463
3zxtACPDeath-associated protein kinase 12.7.11.10.463
4btjADPTau-tubulin kinase 12.7.11.10.463
4k33ACPFibroblast growth factor receptor 32.7.10.10.463
4ockANPN-acetylhexosamine 1-kinase2.7.1.1620.463
5auwQUEDeath-associated protein kinase 12.7.11.10.463
5cvhADPCasein kinase II subunit alpha2.7.11.10.463
2r5tANPSerine/threonine-protein kinase Sgk12.7.11.10.462
3orkAGSSerine/threonine protein kinase/0.462
3qcq3Q03-phosphoinositide-dependent protein kinase 12.7.11.10.462
4aw0ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.462
4fg9ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.462
4y12AGSSerine/threonine-protein kinase PknG2.7.11.10.462
5ap7SVEDual specificity protein kinase TTK2.7.12.10.462
2w4jADPDeath-associated protein kinase 12.7.11.10.461
2w4kADPDeath-associated protein kinase 12.7.11.10.461
3ttjJBIMitogen-activated protein kinase 102.7.11.240.461
4ks8B49Serine/threonine-protein kinase PAK 62.7.11.10.461
1oi9N20Cyclin-dependent kinase 22.7.11.220.460
2henADPEphrin type-B receptor 22.7.10.10.460
2j0m4STFocal adhesion kinase 12.7.10.20.460
3kn5ANPRibosomal protein S6 kinase alpha-52.7.11.10.460
4krcAGSCyclin-dependent protein kinase PHO852.7.11.220.460
4tuvCPZCytochrome P450 1191.140.460
4utdACPAurora kinase A2.7.11.10.460
1jnkANPMitogen-activated protein kinase 102.7.11.240.459
1xr1ANPSerine/threonine-protein kinase pim-12.7.11.10.459
2cmwOLPCasein kinase I isoform gamma-12.7.11.10.459
2xrwANPMitogen-activated protein kinase 82.7.11.240.459
4gj30XPNon-receptor tyrosine-protein kinase TYK22.7.10.20.459
1pmv537Mitogen-activated protein kinase 102.7.11.240.458
2j9gANPBiotin carboxylase6.3.4.140.458
3kvxFMYMitogen-activated protein kinase 102.7.11.240.458
3orlAGSSerine/threonine protein kinase/0.458
3ortAGSSerine/threonine protein kinase/0.458
3t8oATPRhodopsin kinase/0.458
4l7f1V5Mitogen-activated protein kinase 82.7.11.240.458
5av2KMPDeath-associated protein kinase 12.7.11.10.458
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.457
2cchATPCyclin-dependent kinase 22.7.11.220.457
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.457
5auvAGIDeath-associated protein kinase 12.7.11.10.457
2pvnP63Casein kinase II subunit alpha2.7.11.10.456
3hrfATP3-phosphoinositide-dependent protein kinase 12.7.11.10.456
3nunJMZ3-phosphoinositide-dependent protein kinase 12.7.11.10.456
3qd33Q53-phosphoinositide-dependent protein kinase 12.7.11.10.456
4anv751Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.456
4jrnANPRhoptry kinase family protein/0.456
4lrjANPUncharacterized protein/0.456
5av4GENDeath-associated protein kinase 12.7.11.10.456
1lp4ANPCasein kinase II subunit alpha2.7.11.10.455
1u54ACPActivated CDC42 kinase 1/0.455
1yvj4STTyrosine-protein kinase JAK32.7.10.20.455
2ywwATPAspartate carbamoyltransferase regulatory chain/0.455
3bu5ATPInsulin receptor2.7.10.10.455
3pxyJWSCyclin-dependent kinase 22.7.11.220.455
3qcs3Q13-phosphoinositide-dependent protein kinase 12.7.11.10.455
3qlsNDPDihydrofolate reductase1.5.1.30.455
3ttiKBIMitogen-activated protein kinase 102.7.11.240.455
4bdcODHSerine/threonine-protein kinase Chk22.7.11.10.455
1f28UMPThymidylate synthase2.1.1.450.454
1ig1ANPDeath-associated protein kinase 12.7.11.10.454
2c59NADGDP-mannose 3,5-epimerase5.1.3.180.454
2vv9IM9Cyclin-dependent kinase 22.7.11.220.454
3gu6ADPDeath-associated protein kinase 12.7.11.10.454
3qcy3Q33-phosphoinositide-dependent protein kinase 12.7.11.10.454
3t3r9PLCytochrome P450 2A61.14.130.454
3u4uLNHCasein kinase II subunit alpha2.7.11.10.454
4awiAQ2Mitogen-activated protein kinase 82.7.11.240.454
4gu94GUFocal adhesion kinase 12.7.10.20.454
1j7lADPAminoglycoside 3'-phosphotransferase2.7.1.950.453
1m78NDPDihydrofolate reductase1.5.1.30.453
1pdhFASp-hydroxybenzoate hydroxylase/0.453
2pvlP55Casein kinase II subunit alpha2.7.11.10.453
2rioADPSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.10.453
2yirYIRSerine/threonine-protein kinase Chk22.7.11.10.453
2zbaZBATrichothecene 3-O-acetyltransferase/0.453
4fl3ANPTyrosine-protein kinase SYK2.7.10.20.453
1wvxBD4Death-associated protein kinase 12.7.11.10.452
2hxl422Serine/threonine-protein kinase Chk12.7.11.10.452
2p33J07Mitogen-activated protein kinase 102.7.11.240.452
3hrcATP3-phosphoinositide-dependent protein kinase 12.7.11.10.452
3k5uPFQAurora kinase A2.7.11.10.452
4dit0KDGlycogen synthase kinase-3 beta2.7.11.260.452
4dpy2P0Mevalonate diphosphate decarboxylase/0.452
4hvi19STyrosine-protein kinase JAK32.7.10.20.452
1pkdUCNCyclin-dependent kinase 22.7.11.220.451
2acxANPG protein-coupled receptor kinase 62.7.11.160.451
3sw719KCyclin-dependent kinase 22.7.11.220.451
4fsnA58Serine/threonine-protein kinase Chk12.7.11.10.451
1h1wATP3-phosphoinositide-dependent protein kinase 12.7.11.10.450
1ol5ADPAurora kinase A2.7.11.10.450
1q41IXMGlycogen synthase kinase-3 beta2.7.11.260.450
1q97ATPSerine/threonine-protein kinase SKY12.7.11.10.450
1yjqNAP2-dehydropantoate 2-reductase1.1.1.1690.450
2ozoANPTyrosine-protein kinase ZAP-702.7.10.20.450
2ym6YM6Serine/threonine-protein kinase Chk12.7.11.10.450
3a14NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase/0.450
3lpbNVBTyrosine-protein kinase JAK2/0.450
3oroAGSSerine/threonine protein kinase/0.450
3tdvGDPGentamicin resistance protein/0.450
4g1wG1WMitogen-activated protein kinase 82.7.11.240.450
4kbk1QGCasein kinase I isoform delta2.7.11.10.450
5e8ySTUTGF-beta receptor type-22.7.11.300.450
2ckeIQUDeath-associated protein kinase 2/0.449
2wqeADPAurora kinase A2.7.11.10.449
2znq401Peroxisome proliferator-activated receptor delta/0.449
3dfcANPDeath-associated protein kinase 12.7.11.10.449
3tkh07SSerine/threonine-protein kinase Chk12.7.11.10.449
4o0wADNAurora kinase A2.7.11.10.449
4ocpADPN-acetylhexosamine 1-kinase2.7.1.1620.449
5dt4ATPAurora kinase A2.7.11.10.449
1j39UPGDNA beta-glucosyltransferase/0.448
2izsBRQCasein kinase I isoform gamma-32.7.11.10.448
2npnSAMPutative cobalamin synthesis related protein/0.448
2r7b2533-phosphoinositide-dependent protein kinase 12.7.11.10.448
2xchCKG3-phosphoinositide-dependent protein kinase 12.7.11.10.448
3hdmMMGSerine/threonine-protein kinase Sgk12.7.11.10.448
3qd43Q63-phosphoinositide-dependent protein kinase 12.7.11.10.448
3r9uFADThioredoxin reductase/0.448
4bkz1WSMaternal embryonic leucine zipper kinase2.7.11.10.448
4xivADPChemotaxis protein CheA2.7.13.30.448
1fpqSAMIsoliquiritigenin 2'-O-methyltransferase/0.447
1ol7ADPAurora kinase A2.7.11.10.447
2w17I19Cyclin-dependent kinase 22.7.11.220.447
2w9hTOPDihydrofolate reductase1.5.1.30.447
2zkjADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.447
3be9P04Casein kinase II subunit alpha2.7.11.10.447
4anmWULCasein kinase II subunit alpha2.7.11.10.447
4fl2ANPTyrosine-protein kinase SYK2.7.10.20.447
4iwo1H4Serine/threonine-protein kinase TBK12.7.11.10.447
5drdATPAurora kinase A2.7.11.10.447
1q8yADPSerine/threonine-protein kinase SKY12.7.11.10.446
1udaUFGUDP-glucose 4-epimerase5.1.3.20.446
2qoqANPEphrin type-A receptor 32.7.10.10.446
2x0iNAIMalate dehydrogenase/0.446
3wblPDYCyclin-dependent kinase 22.7.11.220.446
3zewSTUEphrin type-B receptor 42.7.10.10.446
4eooATPCyclin-dependent kinase 22.7.11.220.446
4mgiCMPRap guanine nucleotide exchange factor 4/0.446
4rqvATP3-phosphoinositide-dependent protein kinase 12.7.11.10.446
5av3KMPDeath-associated protein kinase 12.7.11.10.446
1drhNAPDihydrofolate reductase1.5.1.30.445
2c6eHPMAurora kinase A2.7.11.10.445
2yyiFAD4-hydroxyphenylacetate 3-monooxygenase oxygenase component1.14.14.90.445
3a99ANPSerine/threonine-protein kinase pim-12.7.11.10.445
4dpuAGSMevalonate diphosphate decarboxylase/0.445
4g6hNAIRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial1.6.5.90.445
4ux9ANPMitogen-activated protein kinase 82.7.11.240.445
4y0xADPSerine/threonine-protein kinase PknG2.7.11.10.445
1qbgFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.444
2c27ACOMycothiol acetyltransferase2.3.1.1890.444
2e0aANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.444
3i4bZ48Glycogen synthase kinase-3 beta2.7.11.260.444
3ijdC2FMethylenetetrahydrofolate reductase/0.444
3umpATPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.444
4jbqVX6Aurora kinase A2.7.11.10.444
4nbwNADShort-chain dehydrogenase/reductase SDR/0.444
4nr42LKCREB-binding protein/0.444
4y93746Tyrosine-protein kinase/0.444
1bvrNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.443
1jklANPDeath-associated protein kinase 12.7.11.10.443
1ny3ADPMAP kinase-activated protein kinase 22.7.11.10.443
2clqSTUMitogen-activated protein kinase kinase kinase 52.7.11.250.443
2ijmADPFocal adhesion kinase 12.7.10.20.443
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.443
2xs0ANPMitogen-activated protein kinase 82.7.11.240.443
2zdt46CMitogen-activated protein kinase 102.7.11.240.443
3bqr4RBDeath-associated protein kinase 3/0.443
3c0i3AMPeripheral plasma membrane protein CASK2.7.11.10.443
3cgoJNOMitogen-activated protein kinase 102.7.11.240.443
3fzpAGSProtein-tyrosine kinase 2-beta2.7.10.20.443
4mwhATPCasein kinase II subunit alpha2.7.11.10.443
5auzGENDeath-associated protein kinase 12.7.11.10.443
5dt0SKEAurora kinase A2.7.11.10.443
5eccNAPDehydrofolate reductase type I/0.443
1jpaANPEphrin type-B receptor 22.7.10.10.442
1ol6ATPAurora kinase A2.7.11.10.442
1om1IQACasein kinase II subunit alpha2.7.11.10.442
1pmn984Mitogen-activated protein kinase 102.7.11.240.442
2br1PFPSerine/threonine-protein kinase Chk12.7.11.10.442
3ckxSTUSerine/threonine-protein kinase 242.7.11.10.442
3cy2MB9Serine/threonine-protein kinase pim-12.7.11.10.442
3lj3WYEPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
3nuyJPZ3-phosphoinositide-dependent protein kinase 12.7.11.10.442
3pghFLPProstaglandin G/H synthase 21.14.99.10.442
4ix5ANPUncharacterized protein/0.442
4jbpYPHAurora kinase A2.7.11.10.442
4l9i8PRRhodopsin kinase/0.442
4o0sADNAurora kinase A2.7.11.10.442
4o6mC5PUncharacterized protein/0.442
4r8qADPMitotic checkpoint serine/threonine-protein kinase BUB12.7.11.10.442
5ar4SB2Receptor-interacting serine/threonine-protein kinase 22.7.11.10.442
5dt3ATPAurora kinase A2.7.11.10.442
1ci7UMPThymidylate synthase2.1.1.450.441
1rx1NAPDihydrofolate reductase1.5.1.30.441
1u4dDBQActivated CDC42 kinase 1/0.441
2f4bEHAPeroxisome proliferator-activated receptor gamma/0.441
2py3ACPFibroblast growth factor receptor 2/0.441
2ycqUPXSerine/threonine-protein kinase Chk22.7.11.10.441
3a7jADPSerine/threonine-protein kinase 242.7.11.10.441
3kjrNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.441
3t2zFADSulfide-quinone reductase/0.441
4a06ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.441
4b8lA0PAurora kinase B-A2.7.11.10.441
4fkg4CKCyclin-dependent kinase 22.7.11.220.441
4fl1ANPTyrosine-protein kinase SYK2.7.10.20.441
4hbgNDP3-oxoacyl-[acyl-carrier-protein] reductase1.1.1.1000.441
4kzoNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.441
4xj3GTPCyclic GMP-AMP synthase/0.441
1csnATPCasein kinase I homolog 12.7.11.10.440
1m2rMNYCasein kinase II subunit alpha2.7.11.10.440
1o76CAMCamphor 5-monooxygenase1.14.15.10.440
1ykdCMPAdenylate cyclase/0.440
2a1tFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.440
2bmcMPYAurora kinase A2.7.11.10.440
2cgw3C3Serine/threonine-protein kinase Chk12.7.11.10.440
2iw94SPCyclin-dependent kinase 22.7.11.220.440
3sc13S13-phosphoinositide-dependent protein kinase 12.7.11.10.440
4ewn0VRImidazole glycerol phosphate synthase subunit HisF4.1.30.440
4iv6FDAIsovaleryl-CoA dehydrogenase/0.440
4j95ACPFibroblast growth factor receptor 2/0.440
4k1b1OCSerine/threonine-protein kinase pim-12.7.11.10.440