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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
4iebANPCalmodulin-domain protein kinase 1

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
4iebANPCalmodulin-domain protein kinase 1/1.000
3hx4ANPCalmodulin-domain protein kinase 1/0.557
4bddZ0OSerine/threonine-protein kinase Chk22.7.11.10.521
2w0jZATSerine/threonine-protein kinase Chk22.7.11.10.515
4bdbODOSerine/threonine-protein kinase Chk22.7.11.10.512
4bdcODHSerine/threonine-protein kinase Chk22.7.11.10.509
4bdhWVISerine/threonine-protein kinase Chk22.7.11.10.508
4bdgP3JSerine/threonine-protein kinase Chk22.7.11.10.497
4bdfH3RSerine/threonine-protein kinase Chk22.7.11.10.490
2ycrHCWSerine/threonine-protein kinase Chk22.7.11.10.489
2ycsNXPSerine/threonine-protein kinase Chk22.7.11.10.488
2bdf24AProto-oncogene tyrosine-protein kinase Src2.7.10.20.483
4bdiHAUSerine/threonine-protein kinase Chk22.7.11.10.483
4g6nEK0Mitogen-activated protein kinase 12.7.11.240.482
2hk51BMTyrosine-protein kinase HCK2.7.10.20.480
3cjfSAVVascular endothelial growth factor receptor 22.7.10.10.475
4nks2M2Fibroblast growth factor receptor 1/0.474
4mxoDB8Proto-oncogene tyrosine-protein kinase Src2.7.10.20.473
2w7xD1ASerine/threonine-protein kinase Chk22.7.11.10.471
3cjgKIMVascular endothelial growth factor receptor 22.7.10.10.471
4j97ACPFibroblast growth factor receptor 2/0.471
4mxyDB8Proto-oncogene tyrosine-protein kinase Src2.7.10.20.471
4mxzDB8Proto-oncogene tyrosine-protein kinase Src2.7.10.20.471
2c6eHPMAurora kinase A2.7.11.10.470
1szmBI4cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.468
2r0uM54Serine/threonine-protein kinase Chk12.7.11.10.468
3lijANPCalcium/calmodulin dependent protein kinase with a kinase domain and 4 calmodulin like EF hands/0.468
2i0ePDSProtein kinase C beta type2.7.11.130.467
2vrx447Aurora kinase B-A2.7.11.10.466
3l08ZIGPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.466
5d12G97Proto-oncogene tyrosine-protein kinase Src2.7.10.20.466
2yiqYIQSerine/threonine-protein kinase Chk22.7.11.10.465
4bc6XZNSerine/threonine-protein kinase 102.7.11.10.465
4c4h7RODual specificity protein kinase TTK2.7.12.10.465
4fg7ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.465
2yirYIRSerine/threonine-protein kinase Chk22.7.11.10.464
4nka2K7Fibroblast growth factor receptor 1/0.464
4yuqKS1Calmodulin-like domain protein kinase/0.463
1qpdSTUTyrosine-protein kinase Lck2.7.10.20.462
2zm1KSFTyrosine-protein kinase Lck2.7.10.20.462
2j7t274Serine/threonine-protein kinase 102.7.11.10.461
3b8r887Vascular endothelial growth factor receptor 22.7.10.10.461
3vryB43Tyrosine-protein kinase HCK2.7.10.20.461
1t1rIMB1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.460
3bqr4RBDeath-associated protein kinase 3/0.460
4qmnDB8Serine/threonine-protein kinase 242.7.11.10.460
3vid4TTVascular endothelial growth factor receptor 22.7.10.10.459
1e90MYCPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.458
2yitYITSerine/threonine-protein kinase Chk22.7.11.10.458
4aotGW8Serine/threonine-protein kinase 102.7.11.10.458
2ycqUPXSerine/threonine-protein kinase Chk22.7.11.10.457
2wmqZYQSerine/threonine-protein kinase Chk12.7.11.10.456
3vs4VSFTyrosine-protein kinase HCK2.7.10.20.456
4fsqHK3Serine/threonine-protein kinase Chk12.7.11.10.456
4ftm1HKSerine/threonine-protein kinase Chk12.7.11.10.456
4l425FIRibosomal protein S6 kinase beta-12.7.11.10.456
3gubGUBDeath-associated protein kinase 12.7.11.10.455
4hgt15GCasein kinase I isoform delta2.7.11.10.455
3ncgBK1Calmodulin-domain protein kinase 1, putative/0.454
4fic0ULProto-oncogene tyrosine-protein kinase Src2.7.10.20.454
5auwQUEDeath-associated protein kinase 12.7.11.10.454
4jlcSU6Serine/threonine-protein kinase TBK12.7.11.10.453
2pzpACPFibroblast growth factor receptor 2/0.452
2wtdZZKSerine/threonine-protein kinase Chk22.7.11.10.452
3ac3KSHTyrosine-protein kinase Lck2.7.10.20.452
3ml8ML8Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.452
4g170VNCasein kinase I isoform gamma-32.7.11.10.452
1qpjSTUTyrosine-protein kinase Lck2.7.10.20.451
2chz093Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.451
2of4979Tyrosine-protein kinase Lck2.7.10.20.451
3apfBMWPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.451
3vs7KS1Tyrosine-protein kinase HCK2.7.10.20.451
4lggVGGProto-oncogene tyrosine-protein kinase Src2.7.10.20.451
1ir3ANPInsulin receptor2.7.10.10.450
2c0iL1GTyrosine-protein kinase HCK2.7.10.20.450
2dq7STUTyrosine-protein kinase Fyn2.7.10.20.450
2qo9ANPEphrin type-A receptor 32.7.10.10.450
1cm8ANPMitogen-activated protein kinase 12/0.449
4c4g7RODual specificity protein kinase TTK2.7.12.10.449
4gk4L90Ephrin type-A receptor 32.7.10.10.449
1w1rZEACytokinin dehydrogenase 11.5.99.120.448
2yfxVGHALK tyrosine kinase receptor2.7.10.10.448
2hog710Serine/threonine-protein kinase Chk12.7.11.10.447
2xk9XK9Serine/threonine-protein kinase Chk22.7.11.10.447
3a7hATPSerine/threonine-protein kinase 242.7.11.10.447
3vs6VSHTyrosine-protein kinase HCK2.7.10.20.447
4g1wG1WMitogen-activated protein kinase 82.7.11.240.447
4gmy0X5Tyrosine-protein kinase JAK2/0.447
4i22IREEpidermal growth factor receptor2.7.10.10.447
3u9n09HSerine/threonine-protein kinase Chk12.7.11.10.446
4f640S8Fibroblast growth factor receptor 1/0.446
4fv0EK3Mitogen-activated protein kinase 12.7.11.240.446
4qmxH8HSerine/threonine-protein kinase 242.7.11.10.446
4wkqIREEpidermal growth factor receptor2.7.10.10.446
1xjdSTUProtein kinase C theta type2.7.11.130.445
3r2b05BMAP kinase-activated protein kinase 22.7.11.10.445
4fstHK4Serine/threonine-protein kinase Chk12.7.11.10.445
5amnDTQProto-oncogene tyrosine-protein kinase receptor Ret2.7.10.10.445
1uvrBI83-phosphoinositide-dependent protein kinase 12.7.11.10.444
1xwsBI1Serine/threonine-protein kinase pim-12.7.11.10.444
2ehqNAP1-pyrroline-5-carboxylate dehydrogenase/0.444
2py3ACPFibroblast growth factor receptor 2/0.444
3q4zANPSerine/threonine-protein kinase PAK 12.7.11.10.444
4ezl0SEPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.444
2ckeIQUDeath-associated protein kinase 2/0.443
3axwTIDCasein kinase II subunit alpha2.7.11.10.443
3dt1P40Mitogen-activated protein kinase 14/0.443
3h9f92MDual specificity protein kinase TTK2.7.12.10.443
3v8w0G2Tyrosine-protein kinase ITK/TSK2.7.10.20.443
4k181OBSerine/threonine-protein kinase pim-12.7.11.10.443
2pzrACPFibroblast growth factor receptor 2/0.442
3iw4LW4Protein kinase C alpha type2.7.11.130.442
3nwyGTPUridylate kinase/0.442
4b99R4LMitogen-activated protein kinase 72.7.11.240.442
4gt3ATPMitogen-activated protein kinase 12.7.11.240.442
4hgl0YOCasein kinase I isoform gamma-32.7.11.10.442
4hyi1AOSerine/threonine-protein kinase Chk12.7.11.10.442
4jr3KJREpidermal growth factor receptor2.7.10.10.442
4mcv29KProto-oncogene tyrosine-protein kinase Src2.7.10.20.442
4mq12C3Dual specificity tyrosine-phosphorylation-regulated kinase 1A2.7.12.10.442
1ad5ANPTyrosine-protein kinase HCK2.7.10.20.441
2etm7PYFocal adhesion kinase 12.7.10.20.441
3q5iANPProtein kinase, putative/0.441
4d0l093Phosphatidylinositol 4-kinase beta2.7.1.670.441
4grb0XGCasein kinase II subunit alpha2.7.11.10.441
5av2KMPDeath-associated protein kinase 12.7.11.10.441
1bygSTUTyrosine-protein kinase CSK/0.440
1c6yMK1Protease/0.440
1npa3NHGag-Pol polyprotein3.4.23.160.440
1npwLGZGag-Pol polyprotein3.4.23.160.440
2br1PFPSerine/threonine-protein kinase Chk12.7.11.10.440
2wtcVGMSerine/threonine-protein kinase Chk22.7.11.10.440
2xp2VGHALK tyrosine kinase receptor2.7.10.10.440
4xhgADPUncharacterized protein/0.440