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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
4pl3ADPSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.1

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
4pl3ADPSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.11.000
3p23ADPSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.10.536
5c03AGSNon-receptor tyrosine-protein kinase TYK22.7.10.20.503
3oriAGSSerine/threonine protein kinase/0.500
4qmxH8HSerine/threonine-protein kinase 242.7.11.10.495
2qo9ANPEphrin type-A receptor 32.7.10.10.493
3nizADPCdc2-like CDK2/CDC28 like protein kinase/0.493
4fl3ANPTyrosine-protein kinase SYK2.7.10.20.491
4aotGW8Serine/threonine-protein kinase 102.7.11.10.490
3k5uPFQAurora kinase A2.7.11.10.486
3c4wATPRhodopsin kinase/0.484
1ny3ADPMAP kinase-activated protein kinase 22.7.11.10.482
2rioADPSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.10.482
4k33ACPFibroblast growth factor receptor 32.7.10.10.481
5e8wSTUTGF-beta receptor type-12.7.11.300.480
3l8p0CEAngiopoietin-1 receptor2.7.10.10.479
3ncgBK1Calmodulin-domain protein kinase 1, putative/0.478
3wi6YRZMAP kinase-activated protein kinase 22.7.11.10.477
3c50ADPRhodopsin kinase/0.475
3lmgANPReceptor tyrosine-protein kinase erbB-32.7.10.10.474
1o6yACPSerine/threonine-protein kinase PknB2.7.11.10.473
2ghlLIBMitogen-activated protein kinase 14/0.473
2wqeADPAurora kinase A2.7.11.10.473
2acxANPG protein-coupled receptor kinase 62.7.11.160.472
2z7qACPRibosomal protein S6 kinase alpha-12.7.11.10.471
4b0gVEKAurora kinase A2.7.11.10.470
1bygSTUTyrosine-protein kinase CSK/0.469
2w4kADPDeath-associated protein kinase 12.7.11.10.469
1qcfPP1Tyrosine-protein kinase HCK2.7.10.20.467
2j7t274Serine/threonine-protein kinase 102.7.11.10.467
4kbk1QGCasein kinase I isoform delta2.7.11.10.467
2qocANPEphrin type-A receptor 32.7.10.10.466
2zdt46CMitogen-activated protein kinase 102.7.11.240.466
1csnATPCasein kinase I homolog 12.7.11.10.465
2c0tL3GTyrosine-protein kinase HCK2.7.10.20.465
1ir3ANPInsulin receptor2.7.10.10.464
1pyxANPGlycogen synthase kinase-3 beta2.7.11.260.464
1yvj4STTyrosine-protein kinase JAK32.7.10.20.464
3a7jADPSerine/threonine-protein kinase 242.7.11.10.464
3ac3KSHTyrosine-protein kinase Lck2.7.10.20.464
3ttiKBIMitogen-activated protein kinase 102.7.11.240.464
4gk3L87Ephrin type-A receptor 32.7.10.10.464
4lrjANPUncharacterized protein/0.464
4nk92K5Fibroblast growth factor receptor 1/0.464
3r04UNQSerine/threonine-protein kinase pim-12.7.11.10.463
4xx9ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.463
1u54ACPActivated CDC42 kinase 1/0.461
1xr1ANPSerine/threonine-protein kinase pim-12.7.11.10.460
2pwlACPFibroblast growth factor receptor 2/0.460
5cvhADPCasein kinase II subunit alpha2.7.11.10.460
1ywrLI9Mitogen-activated protein kinase 14/0.459
4bf2STUMitogen-activated protein kinase kinase kinase 52.7.11.250.459
4gfo0X2Non-receptor tyrosine-protein kinase TYK22.7.10.20.459
4gmy0X5Tyrosine-protein kinase JAK2/0.459
4nj32KDCyclin-dependent kinase 22.7.11.220.459
5aaaVGHALK tyrosine kinase receptor2.7.10.10.459
1ol7ADPAurora kinase A2.7.11.10.458
2izrBRKCasein kinase I isoform gamma-32.7.11.10.458
2uzbC75Cyclin-dependent kinase 22.7.11.220.458
3dt1P40Mitogen-activated protein kinase 14/0.458
3igoANPCalmodulin-domain protein kinase 1, putative/0.458
3r2b05BMAP kinase-activated protein kinase 22.7.11.10.458
4bibIEOMitogen-activated protein kinase kinase kinase 52.7.11.250.458
4tuvCPZCytochrome P450 1191.140.458
1ih8APCNH(3)-dependent NAD(+) synthetase6.3.1.50.457
1q1rFADPutidaredoxin reductase1.18.1.50.457
2e9n76ASerine/threonine-protein kinase Chk12.7.11.10.457
3hllI45Mitogen-activated protein kinase 14/0.457
3ormAGSSerine/threonine protein kinase/0.457
4fg7ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.457
1aq1STUCyclin-dependent kinase 22.7.11.220.456
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.456
2qoqANPEphrin type-A receptor 32.7.10.10.456
3nszANPCasein kinase II subunit alpha2.7.11.10.456
3q9oNADCholix toxin2.4.2.360.456
3zuyTCHTransporter/0.456
4y95746Tyrosine-protein kinase/0.456
5l8lADPAurora kinase A2.7.11.10.456
1ouk084Mitogen-activated protein kinase 14/0.455
2excJNKMitogen-activated protein kinase 102.7.11.240.455
2izuP01Casein kinase I isoform gamma-32.7.11.10.455
2vz6FEFCalcium/calmodulin-dependent protein kinase type II subunit alpha2.7.11.170.455
4fv4EK7Mitogen-activated protein kinase 12.7.11.240.455
4yuqKS1Calmodulin-like domain protein kinase/0.455
5dt4ATPAurora kinase A2.7.11.10.455
5e8xSTUTGF-beta receptor type-12.7.11.300.455
1i44ACPInsulin receptor2.7.10.10.454
1ol6ATPAurora kinase A2.7.11.10.454
1q8yADPSerine/threonine-protein kinase SKY12.7.11.10.454
3c4xATPRhodopsin kinase/0.454
3flsFLSMitogen-activated protein kinase 14/0.454
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.454
4qpmADPMitotic checkpoint serine/threonine-protein kinase BUB12.7.11.10.454
4z34ON7Lysophosphatidic acid receptor 1/0.454
4fob0USALK tyrosine kinase receptor2.7.10.10.453
4jr7GNPCasein kinase II subunit alpha2.7.11.10.453
2broDF2Serine/threonine-protein kinase Chk12.7.11.10.452
2vwx7X4Ephrin type-B receptor 42.7.10.10.452
2ym6YM6Serine/threonine-protein kinase Chk12.7.11.10.452
3a7hATPSerine/threonine-protein kinase 242.7.11.10.452
5drdATPAurora kinase A2.7.11.10.452
1q41IXMGlycogen synthase kinase-3 beta2.7.11.260.451
1u5rATPSerine/threonine-protein kinase TAO22.7.11.10.451
2vwu7X1Ephrin type-B receptor 42.7.10.10.451
3eljGS7Mitogen-activated protein kinase 82.7.11.240.451
3otqMZLBifunctional epoxide hydrolase 23.3.2.100.451
4ewqMWLMitogen-activated protein kinase 14/0.451
4gk2L66Ephrin type-A receptor 32.7.10.10.451
4h8nNDPNADPH-dependent conjugated polyketone reductase C2/0.451
4ic7ANPMitogen-activated protein kinase 72.7.11.240.451
2bdf24AProto-oncogene tyrosine-protein kinase Src2.7.10.20.450
2brgDFYSerine/threonine-protein kinase Chk12.7.11.10.450
2vx07X7Ephrin type-B receptor 42.7.10.10.450
3cokANPSerine/threonine-protein kinase PLK42.7.11.210.450
3hrfATP3-phosphoinositide-dependent protein kinase 12.7.11.10.450
3tkiS25Serine/threonine-protein kinase Chk12.7.11.10.450
4fhj0TZPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.450
5cvcPLPSerine racemase/0.450
1dkfBMSRetinoic acid receptor alpha/0.449
1yw2PGJMitogen-activated protein kinase 14/0.449
2q6bHR23-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.340.449
3mdvCL6Cholesterol 24-hydroxylase/0.449
3w33W19Epidermal growth factor receptor2.7.10.10.449
4dn5AGSMitogen-activated protein kinase kinase kinase 142.7.11.250.449
4utdACPAurora kinase A2.7.11.10.449
3blqATPCyclin-dependent kinase 92.7.11.220.448
3f69XDRSerine/threonine-protein kinase PknB2.7.11.10.448
3lltANPProtein serine/threonine kinase-1/0.448
4c3f7KWTyrosine-protein kinase Lck2.7.10.20.448
4zseANPEpidermal growth factor receptor2.7.10.10.448
5dn3ATPAurora kinase A2.7.11.10.448
5dt3ATPAurora kinase A2.7.11.10.448
1j1cADPGlycogen synthase kinase-3 beta2.7.11.260.447
2cchATPCyclin-dependent kinase 22.7.11.220.447
2x2lX2LProto-oncogene tyrosine-protein kinase receptor Ret2.7.10.10.447
2yx6ADPUncharacterized protein/0.447
3gubGUBDeath-associated protein kinase 12.7.11.10.447
3r9hZ67Cyclin-dependent kinase 22.7.11.220.447
3tnlNADShikimate dehydrogenase (NADP(+))/0.447
3tqhNDPQuinone oxidoreductase/0.447
4c62XWWTyrosine-protein kinase JAK2/0.447
4jvf17XRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.447
5ar4SB2Receptor-interacting serine/threonine-protein kinase 22.7.11.10.447
1g67TZPThiamine-phosphate synthase/0.446
3eej53RUncharacterized protein/0.446
3n10CMPAdenylate cyclase 2/0.446
4fl2ANPTyrosine-protein kinase SYK2.7.10.20.446
1gheACOAcetyltransferase2.3.10.445
1hdgNADGlyceraldehyde-3-phosphate dehydrogenase/0.445
1qpjSTUTyrosine-protein kinase Lck2.7.10.20.445
1qtmTTPDNA polymerase I, thermostable2.7.7.70.445
2dq7STUTyrosine-protein kinase Fyn2.7.10.20.445
2dwbANPAurora kinase A2.7.11.10.445
2izt23DCasein kinase I isoform gamma-32.7.11.10.445
2py3ACPFibroblast growth factor receptor 2/0.445
3oroAGSSerine/threonine protein kinase/0.445
3poz03PEpidermal growth factor receptor2.7.10.10.445
3vs6VSHTyrosine-protein kinase HCK2.7.10.20.445
4eh70OOMitogen-activated protein kinase 14/0.445
4f630S7Fibroblast growth factor receptor 1/0.445
4jqeANPCasein kinase II subunit alpha2.7.11.10.445
4kb81QOCasein kinase I isoform delta2.7.11.10.445
4qmzB49Serine/threonine-protein kinase 242.7.11.10.445
4y93746Tyrosine-protein kinase/0.445
1ykdCMPAdenylate cyclase/0.444
1zidZIDEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.444
2j0m4STFocal adhesion kinase 12.7.10.20.444
2o0uC0MMitogen-activated protein kinase 102.7.11.240.444
2qboCAMCamphor 5-monooxygenase1.14.15.10.444
3gxlQIGTGF-beta receptor type-12.7.11.300.444
4fmqANPMitogen-activated protein kinase 12.7.11.240.444
1nvsUCMSerine/threonine-protein kinase Chk12.7.11.10.443
2qo7ANPEphrin type-A receptor 32.7.10.10.443
2vd5BI8Myotonin-protein kinase2.7.11.10.443
2yn8STUEphrin type-B receptor 42.7.10.10.443
3d7kD7KBenzaldehyde lyase/0.443
3fi3JK2Mitogen-activated protein kinase 102.7.11.240.443
3lctADPALK tyrosine kinase receptor2.7.10.10.443
3orpAGSSerine/threonine protein kinase/0.443
3qc9ADPRhodopsin kinase/0.443
4a99FADTetX family tetracycline inactivation enzyme/0.443
4aw0ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.443
4ks8B49Serine/threonine-protein kinase PAK 62.7.11.10.443
4qmpDKISerine/threonine-protein kinase 242.7.11.10.443
1gthFADDihydropyrimidine dehydrogenase [NADP(+)]1.3.1.20.442
1nhhANPDNA mismatch repair protein MutL/0.442
1og5SWFCytochrome P450 2C9/0.442
1xkkFMMEpidermal growth factor receptor2.7.10.10.442
2ghmLICMitogen-activated protein kinase 14/0.442
2i0y5CNMacrophage colony-stimulating factor 1 receptor2.7.10.10.442
2ozoANPTyrosine-protein kinase ZAP-702.7.10.20.442
2q9fC3SCholesterol 24-hydroxylase/0.442
3flkNAITartrate dehydrogenase/decarboxylase1.1.1.930.442
3ggfGVDSerine/threonine-protein kinase 26/0.442
3w0sANPHygromycin-B 4-O-kinase2.7.1.1630.442
3zlyYSODual specificity mitogen-activated protein kinase kinase 12.7.12.20.442
4cdmFO1Deoxyribodipyrimidine photolyase/0.442
4k2rANPTyrosine-protein kinase ZAP-702.7.10.20.442
1q97ATPSerine/threonine-protein kinase SKY12.7.11.10.441
1t85CAMCamphor 5-monooxygenase1.14.15.10.441
2gqtFADUDP-N-acetylenolpyruvoylglucosamine reductase/0.441
2xneASHAurora kinase A2.7.11.10.441
2zaxCAMCamphor 5-monooxygenase1.14.15.10.441
3cisATPUniversal stress protein Rv2623/0.441
3kvxFMYMitogen-activated protein kinase 102.7.11.240.441
3rkb12ZCyclin-dependent kinase 22.7.11.220.441
3w2sW2REpidermal growth factor receptor2.7.10.10.441
4anv751Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
4hhy15RPoly [ADP-ribose] polymerase 12.4.2.300.441
4qms1N1Serine/threonine-protein kinase 242.7.11.10.441
5aacVGHALK tyrosine kinase receptor2.7.10.10.441
1ia4TQ6Dihydrofolate reductase1.5.1.30.440
1j1bANPGlycogen synthase kinase-3 beta2.7.11.260.440
2itzIREEpidermal growth factor receptor2.7.10.10.440
2pzpACPFibroblast growth factor receptor 2/0.440
2x2mX2MProto-oncogene tyrosine-protein kinase receptor Ret2.7.10.10.440
2xrwANPMitogen-activated protein kinase 82.7.11.240.440
2y9qANPMitogen-activated protein kinase 12.7.11.240.440
2yirYIRSerine/threonine-protein kinase Chk22.7.11.10.440
4gu94GUFocal adhesion kinase 12.7.10.20.440