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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
2zmd537Dual specificity protein kinase TTK2.7.12.1

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
2zmd537Dual specificity protein kinase TTK2.7.12.11.000
4c4g7RODual specificity protein kinase TTK2.7.12.10.635
4bi1ZO6Dual specificity protein kinase TTK2.7.12.10.634
4c4h7RODual specificity protein kinase TTK2.7.12.10.632
4c4iX20Dual specificity protein kinase TTK2.7.12.10.610
4bi0Z0WDual specificity protein kinase TTK2.7.12.10.605
5ap57RODual specificity protein kinase TTK2.7.12.10.588
4c4f7CEDual specificity protein kinase TTK2.7.12.10.523
2wqeADPAurora kinase A2.7.11.10.514
4jbqVX6Aurora kinase A2.7.11.10.507
3k5uPFQAurora kinase A2.7.11.10.505
3f69XDRSerine/threonine-protein kinase PknB2.7.11.10.503
2vu3LZECyclin-dependent kinase 22.7.11.220.501
3icrCOACoenzyme A disulfide reductase/0.498
4yzcSTUSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.10.493
3vquO22Dual specificity protein kinase TTK2.7.12.10.492
4o0uADNAurora kinase A2.7.11.10.491
5ap7SVEDual specificity protein kinase TTK2.7.12.10.489
3ztxZTXAurora kinase B-A2.7.11.10.488
4b99R4LMitogen-activated protein kinase 72.7.11.240.487
1pmn984Mitogen-activated protein kinase 102.7.11.240.486
3qlfPD5Proto-oncogene tyrosine-protein kinase Src2.7.10.20.485
3ttjJBIMitogen-activated protein kinase 102.7.11.240.484
2ghmLICMitogen-activated protein kinase 14/0.483
4mcv29KProto-oncogene tyrosine-protein kinase Src2.7.10.20.480
2c6eHPMAurora kinase A2.7.11.10.479
2fvdLIACyclin-dependent kinase 22.7.11.220.479
2vgpAD6Aurora kinase B-A2.7.11.10.479
3cokANPSerine/threonine-protein kinase PLK42.7.11.210.479
4id71G0Activated CDC42 kinase 1/0.477
5awmANPStress-activated protein kinase JNK2.7.11.240.477
4c3pACPAurora kinase A2.7.11.10.476
4eevL1XHepatocyte growth factor receptor2.7.10.10.476
2ycqUPXSerine/threonine-protein kinase Chk22.7.11.10.473
3t2zFADSulfide-quinone reductase/0.472
4aotGW8Serine/threonine-protein kinase 102.7.11.10.472
4jlcSU6Serine/threonine-protein kinase TBK12.7.11.10.471
4jia1K3Tyrosine-protein kinase JAK2/0.470
2w05FRTCyclin-dependent kinase 22.7.11.220.469
2ycrHCWSerine/threonine-protein kinase Chk22.7.11.10.469
2yitYITSerine/threonine-protein kinase Chk22.7.11.10.469
3w2sW2REpidermal growth factor receptor2.7.10.10.469
1i7iAZ2Peroxisome proliferator-activated receptor gamma/0.468
4d0l093Phosphatidylinositol 4-kinase beta2.7.1.670.468
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.467
2om9AJAPeroxisome proliferator-activated receptor gamma/0.467
4hfmNAP2-alkenal reductase (NADP(+)-dependent)/0.467
3vjhJ35Peroxisome proliferator-activated receptor gamma/0.466
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.465
2y03Y01Beta-1 adrenergic receptor/0.465
4fv9E71Mitogen-activated protein kinase 12.7.11.240.465
1i44ACPInsulin receptor2.7.10.10.464
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.463
3cgfJNFMitogen-activated protein kinase 102.7.11.240.462
4b0gVEKAurora kinase A2.7.11.10.462
2npaMMBPeroxisome proliferator-activated receptor alpha/0.461
2qa2FADPolyketide oxygenase CabE/0.461
2y00Y01Beta-1 adrenergic receptor/0.461
3gc9B45Mitogen-activated protein kinase 112.7.11.240.461
4jazSTLPeroxisome proliferator-activated receptor gamma/0.461
1rdt570Peroxisome proliferator-activated receptor gamma/0.460
3ictCOACoenzyme A disulfide reductase/0.460
3lj3WYEPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.460
3qxpX64Cyclin-dependent kinase 22.7.11.220.460
4flh14KPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.460
2xk9XK9Serine/threonine-protein kinase Chk22.7.11.10.459
3v8w0G2Tyrosine-protein kinase ITK/TSK2.7.10.20.459
3tm5SFGUncharacterized protein/0.458
4bf2STUMitogen-activated protein kinase kinase kinase 52.7.11.250.458
4nka2K7Fibroblast growth factor receptor 1/0.458
4xldBRLPeroxisome proliferator-activated receptor gamma/0.458
4xuhSFIPeroxisome proliferator-activated receptor gamma/0.458
2o2u738Mitogen-activated protein kinase 102.7.11.240.457
2j0lANPFocal adhesion kinase 12.7.10.20.456
3tqhNDPQuinone oxidoreductase/0.456
4e730NRMitogen-activated protein kinase 82.7.11.240.456
4jvb1M0Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.456
2yiqYIQSerine/threonine-protein kinase Chk22.7.11.10.455
3fzt4JZProtein-tyrosine kinase 2-beta2.7.10.20.455
3h0aD30Peroxisome proliferator-activated receptor gamma/0.455
3ormAGSSerine/threonine protein kinase/0.455
3vs2VSBTyrosine-protein kinase HCK2.7.10.20.455
2jn3JN3Fatty acid-binding protein, liver/0.454
2yirYIRSerine/threonine-protein kinase Chk22.7.11.10.454
3erkSB4Mitogen-activated protein kinase 12.7.11.240.454
3l8p0CEAngiopoietin-1 receptor2.7.10.10.454
3vs7KS1Tyrosine-protein kinase HCK2.7.10.20.454
3w1f1O5Dual specificity protein kinase TTK2.7.12.10.454
4hee14RPeroxisome proliferator-activated receptor gamma/0.454
4i22IREEpidermal growth factor receptor2.7.10.10.454
4yduADPtRNA N6-adenosine threonylcarbamoyltransferase/0.453
5ajqDB8Serine/threonine-protein kinase 102.7.11.10.453
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.452
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.452
3t1tGDPProbable gliding protein mglA/0.452
3vs1VSATyrosine-protein kinase HCK2.7.10.20.452
2p9cNAID-3-phosphoglycerate dehydrogenase1.1.1.950.451
3i59N6RCRP-like cAMP-activated global transcriptional regulator/0.451
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.451
4ansVGHALK tyrosine kinase receptor2.7.10.10.451
3jynNDPQuinone oxidoreductase/0.450
4bewCZASarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.450
5hes032Mitogen-activated protein kinase kinase kinase 202.7.11.250.450
2ohxNADAlcohol dehydrogenase E chain1.1.1.10.449
2vrx447Aurora kinase B-A2.7.11.10.449
2y02Y01Beta-1 adrenergic receptor/0.449
3icsCOACoenzyme A disulfide reductase/0.449
3vsoEK1Peroxisome proliferator-activated receptor gamma/0.449
4ubsDIFPentalenic acid synthase1.14.15.110.449
2q59240Peroxisome proliferator-activated receptor gamma/0.448
3s85LK0Gag-Pol polyprotein/0.448
3w18N13Aurora kinase A2.7.11.10.448
3wi6YRZMAP kinase-activated protein kinase 22.7.11.10.448
4b7dQLECytochrome P450 monooxygenase PikC/0.448
4fr4STUSerine/threonine-protein kinase 32A2.7.11.10.448
4g1wG1WMitogen-activated protein kinase 82.7.11.240.448
4hw319GInduced myeloid leukemia cell differentiation protein Mcl-1/0.448
4ma628EAra h 8 allergen/0.448
4mxyDB8Proto-oncogene tyrosine-protein kinase Src2.7.10.20.448
4mxzDB8Proto-oncogene tyrosine-protein kinase Src2.7.10.20.448
4xiwAZMCarbonic anhydrase, alpha type/0.448
2ay84TBAromatic-amino-acid aminotransferase2.6.1.570.447
2excJNKMitogen-activated protein kinase 102.7.11.240.447
3lijANPCalcium/calmodulin dependent protein kinase with a kinase domain and 4 calmodulin like EF hands/0.447
4hyu1BKMitogen-activated protein kinase 82.7.11.240.447
4iaxLIZNeutrophil gelatinase-associated lipocalin/0.447
1zeoC01Peroxisome proliferator-activated receptor gamma/0.446
3oriAGSSerine/threonine protein kinase/0.446
3vs5VSGTyrosine-protein kinase HCK2.7.10.20.446
4h3qANPMitogen-activated protein kinase 12.7.11.240.446
4zohFADPutative oxidoreductase FAD-binding subunit/0.446
2b0m201Dihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.445
2p33J07Mitogen-activated protein kinase 102.7.11.240.445
2w7xD1ASerine/threonine-protein kinase Chk22.7.11.10.445
3f5p741Insulin-like growth factor 1 receptor2.7.10.10.445
3nx4NAPPutative oxidoreductase/0.445
3t2kFADSulfide-quinone reductase/0.445
3v9v21LPeroxisome proliferator-activated receptor gamma/0.445
4a31MYAGlycylpeptide N-tetradecanoyltransferase/0.445
4bqpNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.445
4eym0RXMitogen-activated protein kinase 132.7.11.240.445
4fuxE75Mitogen-activated protein kinase 12.7.11.240.445
4qe6JN3Bile acid receptor/0.445
2h8hH8HProto-oncogene tyrosine-protein kinase Src2.7.10.20.444
3a99ANPSerine/threonine-protein kinase pim-12.7.11.10.444
4e37NDPCatalase1.11.1.60.444
4e4qRRHPeroxisome proliferator-activated receptor gamma/0.444
4fg7ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.444
1qxlFR8Adenosine deaminase3.5.4.40.443
2o0uC0MMitogen-activated protein kinase 102.7.11.240.443
2prh238Dihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.443
3w2rW2REpidermal growth factor receptor2.7.10.10.443
4iarERM5-hydroxytryptamine receptor 1B/0.443
4uyaAGSMitogen-activated protein kinase kinase kinase 212.7.11.250.443
1tz8DESTransthyretin/0.442
2ph5NADHomospermidine synthase/0.442
3a4oSTUTyrosine-protein kinase Lyn2.7.10.20.442
3efwAK8Aurora kinase A2.7.11.10.442
3igoANPCalmodulin-domain protein kinase 1, putative/0.442
3pgqGY3Acetyl-CoA carboxylase/0.442
3ttiKBIMitogen-activated protein kinase 102.7.11.240.442
4bcmT7ZCyclin-dependent kinase 22.7.11.220.442
4ic7ANPMitogen-activated protein kinase 72.7.11.240.442
4ysjADPCalmodulin-like domain protein kinase/0.442
2e9cB75Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.441
2j3iNAPNADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.441
2qo5CHDFatty acid-binding protein 10-A, liver basic/0.441
2vn0TDZCytochrome P450 2C8/0.441
2z7qACPRibosomal protein S6 kinase alpha-12.7.11.10.441
3froNHFGlgA glycogen synthase/0.441
3zxtACPDeath-associated protein kinase 12.7.11.10.441
4a4vYFDPeroxisome proliferator-activated receptor gamma/0.441
4b4oNDPEpimerase family protein SDR39U1/0.441
4bddZ0OSerine/threonine-protein kinase Chk22.7.11.10.441
4fic0ULProto-oncogene tyrosine-protein kinase Src2.7.10.20.441
4h3c0YZDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.441
5l7dCLRSmoothened homolog/0.441
1ad5ANPTyrosine-protein kinase HCK2.7.10.20.440
1d3gBREDihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.440
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.440
1tvoFRZMitogen-activated protein kinase 12.7.11.240.440
1v9aSAHUncharacterized protein/0.440
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.440
2xp2VGHALK tyrosine kinase receptor2.7.10.10.440
3b6zCO7Enoyl reductase LovC10.440
3bqr4RBDeath-associated protein kinase 3/0.440
3cgoJNOMitogen-activated protein kinase 102.7.11.240.440
4ez72ANCyclin-dependent kinase 22.7.11.220.440