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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
1yi3LY2Serine/threonine-protein kinase pim-12.7.11.1

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
1yi3LY2Serine/threonine-protein kinase pim-12.7.11.11.000
2objVRVSerine/threonine-protein kinase pim-12.7.11.10.715
1yhsSTUSerine/threonine-protein kinase pim-12.7.11.10.650
4n702HXSerine/threonine-protein kinase pim-12.7.11.10.629
3jxwLXGSerine/threonine-protein kinase pim-12.7.11.10.619
3c4eC4ESerine/threonine-protein kinase pim-12.7.11.10.617
4k0y1OASerine/threonine-protein kinase pim-12.7.11.10.617
3vbq0F5Serine/threonine-protein kinase pim-12.7.11.10.615
4lmuQUESerine/threonine-protein kinase pim-12.7.11.10.609
3bgpVX1Serine/threonine-protein kinase pim-12.7.11.10.602
2j2iLY4Serine/threonine-protein kinase pim-12.7.11.10.601
4n6z2HWSerine/threonine-protein kinase pim-12.7.11.10.601
2bilBI1Serine/threonine-protein kinase pim-12.7.11.10.600
4k181OBSerine/threonine-protein kinase pim-12.7.11.10.597
2xizXIZSerine/threonine-protein kinase pim-12.7.11.10.594
3ma301ISerine/threonine-protein kinase pim-12.7.11.10.594
3umxQ18Serine/threonine-protein kinase pim-12.7.11.10.592
3cy2MB9Serine/threonine-protein kinase pim-12.7.11.10.590
3uixQ17Serine/threonine-protein kinase pim-12.7.11.10.586
1yi4ADNSerine/threonine-protein kinase pim-12.7.11.10.585
5dgzL20Serine/threonine-protein kinase pim-12.7.11.10.585
4a7cE46Serine/threonine-protein kinase pim-12.7.11.10.584
3qf9NM8Serine/threonine-protein kinase pim-12.7.11.10.583
1xwsBI1Serine/threonine-protein kinase pim-12.7.11.10.582
4k1b1OCSerine/threonine-protein kinase pim-12.7.11.10.582
3jy0LYGSerine/threonine-protein kinase pim-12.7.11.10.580
3r02UNMSerine/threonine-protein kinase pim-12.7.11.10.578
3jpv1DRSerine/threonine-protein kinase pim-12.7.11.10.576
3cxw7CPSerine/threonine-protein kinase pim-12.7.11.10.574
3bgqVX2Serine/threonine-protein kinase pim-12.7.11.10.571
2o65MYFSerine/threonine-protein kinase pim-12.7.11.10.570
4dtk7LISerine/threonine-protein kinase pim-12.7.11.10.569
3bgzVX3Serine/threonine-protein kinase pim-12.7.11.10.568
4i41MIXSerine/threonine-protein kinase pim-12.7.11.10.565
3dcv55ESerine/threonine-protein kinase pim-12.7.11.10.563
2c3iIYZSerine/threonine-protein kinase pim-12.7.11.10.560
3cy3JN5Serine/threonine-protein kinase pim-12.7.11.10.560
4lm5Q17Serine/threonine-protein kinase pim-12.7.11.10.557
3umw596Serine/threonine-protein kinase pim-12.7.11.10.551
3a99ANPSerine/threonine-protein kinase pim-12.7.11.10.550
3r04UNQSerine/threonine-protein kinase pim-12.7.11.10.547
4mbl26LSerine/threonine-protein kinase pim-12.7.11.10.547
2bikBI1Serine/threonine-protein kinase pim-12.7.11.10.544
2xiyXIYSerine/threonine-protein kinase pim-12.7.11.10.544
1xr1ANPSerine/threonine-protein kinase pim-12.7.11.10.538
2xj2985Serine/threonine-protein kinase pim-12.7.11.10.537
4bznUGXSerine/threonine-protein kinase pim-12.7.11.10.537
2xj1XJ1Serine/threonine-protein kinase pim-12.7.11.10.527
4enxZ20Serine/threonine-protein kinase pim-12.7.11.10.524
4bzo676Serine/threonine-protein kinase pim-12.7.11.10.523
4i22IREEpidermal growth factor receptor2.7.10.10.519
4fob0USALK tyrosine kinase receptor2.7.10.10.505
4enyJ19Serine/threonine-protein kinase pim-12.7.11.10.499
3ncgBK1Calmodulin-domain protein kinase 1, putative/0.496
4wboANWRhodopsin kinase/0.495
4yuqKS1Calmodulin-like domain protein kinase/0.492
4gih0X5Non-receptor tyrosine-protein kinase TYK22.7.10.20.488
4gmy0X5Tyrosine-protein kinase JAK2/0.488
2wihP48Cyclin-dependent kinase 22.7.11.220.485
1szmBI4cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.483
3w33W19Epidermal growth factor receptor2.7.10.10.482
4acc7YGGlycogen synthase kinase-3 beta2.7.11.260.482
3gubGUBDeath-associated protein kinase 12.7.11.10.481
1nvrSTUSerine/threonine-protein kinase Chk12.7.11.10.479
2brmDFZSerine/threonine-protein kinase Chk12.7.11.10.479
3gc9B45Mitogen-activated protein kinase 112.7.11.240.478
2itpAEEEpidermal growth factor receptor2.7.10.10.477
4ks8B49Serine/threonine-protein kinase PAK 62.7.11.10.477
3sayOFTGlycogen synthase kinase-3 beta2.7.11.260.476
3uyt0CKCasein kinase I isoform delta2.7.11.10.476
4u97STUInterleukin-1 receptor-associated kinase 42.7.11.10.476
3oom507Activin receptor type-12.7.11.300.475
3kn5ANPRibosomal protein S6 kinase alpha-52.7.11.10.474
1xjdSTUProtein kinase C theta type2.7.11.130.473
2h8hH8HProto-oncogene tyrosine-protein kinase Src2.7.10.20.473
2ittAEEEpidermal growth factor receptor2.7.10.10.473
3bqr4RBDeath-associated protein kinase 3/0.472
3mvl38PMitogen-activated protein kinase 14/0.472
2h96893Mitogen-activated protein kinase 82.7.11.240.470
3u9n09HSerine/threonine-protein kinase Chk12.7.11.10.470
5auwQUEDeath-associated protein kinase 12.7.11.10.470
2br1PFPSerine/threonine-protein kinase Chk12.7.11.10.469
2cgw3C3Serine/threonine-protein kinase Chk12.7.11.10.468
3bu5ATPInsulin receptor2.7.10.10.468
4fr4STUSerine/threonine-protein kinase 32A2.7.11.10.468
4ft7H3KSerine/threonine-protein kinase Chk12.7.11.10.468
4riyADPEpidermal growth factor receptor2.7.10.10.468
2hog710Serine/threonine-protein kinase Chk12.7.11.10.467
3kf7L9GMitogen-activated protein kinase 14/0.467
1eh4IC1Casein kinase I homolog 12.7.11.10.465
3ormAGSSerine/threonine protein kinase/0.465
4bf2STUMitogen-activated protein kinase kinase kinase 52.7.11.250.465
2iw84SPCyclin-dependent kinase 22.7.11.220.464
3vs7KS1Tyrosine-protein kinase HCK2.7.10.20.464
4hni16WCasein kinase I isoform epsilon2.7.11.10.463
4hyi1AOSerine/threonine-protein kinase Chk12.7.11.10.463
2wxvWXVCyclin-dependent kinase 22.7.11.220.462
4gj20XHNon-receptor tyrosine-protein kinase TYK22.7.10.20.462
2e9n76ASerine/threonine-protein kinase Chk12.7.11.10.461
2ydjYDJSerine/threonine-protein kinase Chk12.7.11.10.461
3du8553Glycogen synthase kinase-3 beta2.7.11.260.461
4fnyI3KALK tyrosine kinase receptor2.7.10.10.461
4othDRNSerine/threonine-protein kinase N1/0.461
5ajqDB8Serine/threonine-protein kinase 102.7.11.10.461
1h1s4SPCyclin-dependent kinase 22.7.11.220.460
1wvxBD4Death-associated protein kinase 12.7.11.10.460
4bbe3O4Tyrosine-protein kinase JAK2/0.460
4hgt15GCasein kinase I isoform delta2.7.11.10.460
4kbk1QGCasein kinase I isoform delta2.7.11.10.460
1pkdUCNCyclin-dependent kinase 22.7.11.220.459
3q9xEMOCasein kinase II subunit alpha2.7.11.10.459
4aojV4ZHigh affinity nerve growth factor receptor2.7.10.10.459
4b99R4LMitogen-activated protein kinase 72.7.11.240.459
4dgnLU2Casein kinase II subunit alpha2.7.11.10.459
3t8oATPRhodopsin kinase/0.458
4aa5NQBMitogen-activated protein kinase 14/0.458
4acg6LQGlycogen synthase kinase-3 beta2.7.11.260.458
1o5rFR9Adenosine deaminase3.5.4.40.457
2xk9XK9Serine/threonine-protein kinase Chk22.7.11.10.457
3oroAGSSerine/threonine protein kinase/0.457
4acdGR9Glycogen synthase kinase-3 beta2.7.11.260.457
4bchT7ZCyclin-dependent kinase 92.7.11.220.457
4c02TAKActivin receptor type-12.7.11.300.457
4gw83RASerine/threonine-protein kinase pim-12.7.11.10.457
1aq1STUCyclin-dependent kinase 22.7.11.220.456
2yirYIRSerine/threonine-protein kinase Chk22.7.11.10.456
4oacADPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.456
5auvAGIDeath-associated protein kinase 12.7.11.10.456
1nvsUCMSerine/threonine-protein kinase Chk12.7.11.10.455
3iw4LW4Protein kinase C alpha type2.7.11.130.455
4iaq2GM5-hydroxytryptamine receptor 1B/0.455
2gcdSTUSerine/threonine-protein kinase TAO22.7.11.10.454
3w1f1O5Dual specificity protein kinase TTK2.7.12.10.454
4a06ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.454
4hgl0YOCasein kinase I isoform gamma-32.7.11.10.454
4nk92K5Fibroblast growth factor receptor 1/0.454
1nvqUCNSerine/threonine-protein kinase Chk12.7.11.10.453
2chlDKICasein kinase I isoform gamma-32.7.11.10.453
2xa4AZ5Tyrosine-protein kinase JAK2/0.453
3a60STURibosomal protein S6 kinase beta-12.7.11.10.453
3mpaSB2Mitogen-activated protein kinase 14/0.453
2acxANPG protein-coupled receptor kinase 62.7.11.160.452
2e9oA58Serine/threonine-protein kinase Chk12.7.11.10.452
3u4uLNHCasein kinase II subunit alpha2.7.11.10.452
4b7tCWTGlycogen synthase kinase-3 beta2.7.11.260.452
4kba1QMCasein kinase I isoform delta2.7.11.10.452
2brhDFWSerine/threonine-protein kinase Chk12.7.11.10.451
2iw94SPCyclin-dependent kinase 22.7.11.220.451
2rioADPSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.10.451
3gb2G3BGlycogen synthase kinase-3 beta2.7.11.260.451
3vrzVRZTyrosine-protein kinase HCK2.7.10.20.451
4afjSJJGlycogen synthase kinase-3 beta2.7.11.260.451
4hvh19RTyrosine-protein kinase JAK32.7.10.20.451
5auxKMPDeath-associated protein kinase 12.7.11.10.451
2znq401Peroxisome proliferator-activated receptor delta/0.450
4anqVGHALK tyrosine kinase receptor2.7.10.10.450
4aw1ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.450
2ycrHCWSerine/threonine-protein kinase Chk22.7.11.10.449
3s1dZIRCytokinin dehydrogenase 11.5.99.120.449
3vs5VSGTyrosine-protein kinase HCK2.7.10.20.449
4achKDIGlycogen synthase kinase-3 beta2.7.11.260.449
4fg7ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.449
1uu3LY43-phosphoinositide-dependent protein kinase 12.7.11.10.448
3tkiS25Serine/threonine-protein kinase Chk12.7.11.10.448
4fod0UVALK tyrosine kinase receptor2.7.10.10.448
4kb81QNCasein kinase I isoform delta2.7.11.10.448
4loqSB4Mitogen-activated protein kinase 14/0.448
4mq22C4Dual specificity tyrosine-phosphorylation-regulated kinase 1A2.7.12.10.448
1qcfPP1Tyrosine-protein kinase HCK2.7.10.20.447
1qxlFR8Adenosine deaminase3.5.4.40.447
2izsBRQCasein kinase I isoform gamma-32.7.11.10.447
4bdcODHSerine/threonine-protein kinase Chk22.7.11.10.447
4bkz1WSMaternal embryonic leucine zipper kinase2.7.11.10.447
5cvhADPCasein kinase II subunit alpha2.7.11.10.447
1oiyN41Cyclin-dependent kinase 22.7.11.220.446
1v7aFRCAdenosine deaminase3.5.4.40.446
2jedLG8Protein kinase C theta type2.7.11.130.446
2wmuZYUSerine/threonine-protein kinase Chk12.7.11.10.446
3vs6VSHTyrosine-protein kinase HCK2.7.10.20.446
5av4GENDeath-associated protein kinase 12.7.11.10.446
2bdjHETProto-oncogene tyrosine-protein kinase Src2.7.10.20.445
2itnANPEpidermal growth factor receptor2.7.10.10.445
2izuP01Casein kinase I isoform gamma-32.7.11.10.445
2x7gPVBSRSF protein kinase 22.7.11.10.445
3lctADPALK tyrosine kinase receptor2.7.10.10.445
4erwSTUCyclin-dependent kinase 22.7.11.220.445
4f630S7Fibroblast growth factor receptor 1/0.445
4ftiH7KSerine/threonine-protein kinase Chk12.7.11.10.445
4kikKSAInhibitor of nuclear factor kappa-B kinase subunit beta2.7.11.100.445
4w9wYDJBMP-2-inducible protein kinase2.7.11.10.445
1umlFR4Adenosine deaminase3.5.4.40.444
2i40BLZCyclin-dependent kinase 22.7.11.220.444
2izrBRKCasein kinase I isoform gamma-32.7.11.10.444
3uvqFS8Mitogen-activated protein kinase 14/0.444
3vs4VSFTyrosine-protein kinase HCK2.7.10.20.444
4c3f7KWTyrosine-protein kinase Lck2.7.10.20.444
4hnf16WCasein kinase I isoform delta2.7.11.10.444
4yhjAN2G protein-coupled receptor kinase 42.7.11.160.444
5f0a1FBcGMP-dependent protein kinase, putative/0.444
1bygSTUTyrosine-protein kinase CSK/0.443
1zys199Serine/threonine-protein kinase Chk12.7.11.10.443
2x1nX1NCyclin-dependent kinase 22.7.11.220.443
3l1sZ92Glycogen synthase kinase-3 beta2.7.11.260.443
4fx360KCyclin-dependent kinase 22.7.11.220.443
4ib4ERM5-hydroxytryptamine receptor 2B/0.443
4nj32KDCyclin-dependent kinase 22.7.11.220.443
2dq7STUTyrosine-protein kinase Fyn2.7.10.20.442
3l8p0CEAngiopoietin-1 receptor2.7.10.10.442
3q3b55EGlycogen synthase kinase-3 beta2.7.11.260.442
3qqkX02Cyclin-dependent kinase 22.7.11.220.442
3r2b05BMAP kinase-activated protein kinase 22.7.11.10.442
4ansVGHALK tyrosine kinase receptor2.7.10.10.442
4bi0Z0WDual specificity protein kinase TTK2.7.12.10.442
4eok4SPCyclin-dependent kinase 22.7.11.220.442
4ft9H4KSerine/threonine-protein kinase Chk12.7.11.10.442
4g160VMCasein kinase I isoform gamma-32.7.11.10.442
4g1wG1WMitogen-activated protein kinase 82.7.11.240.442
4jqeANPCasein kinase II subunit alpha2.7.11.10.442
1o6yACPSerine/threonine-protein kinase PknB2.7.11.10.441
1ywrLI9Mitogen-activated protein kinase 14/0.441
2c3lIDZSerine/threonine-protein kinase Chk12.7.11.10.441
2qo9ANPEphrin type-A receptor 32.7.10.10.441
2vuw5IDSerine/threonine-protein kinase haspin2.7.11.10.441
3bbtFMMReceptor tyrosine-protein kinase erbB-42.7.10.10.441
3ofm4B0Casein kinase II subunit alpha'2.7.11.10.441
3w2sW2REpidermal growth factor receptor2.7.10.10.441
4gu610NFocal adhesion kinase 12.7.10.20.441
4iarERM5-hydroxytryptamine receptor 1B/0.441
4qmzB49Serine/threonine-protein kinase 242.7.11.10.441
4xx9ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.441
5e8wSTUTGF-beta receptor type-12.7.11.300.441
1stcSTUcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.440
1xkkFMMEpidermal growth factor receptor2.7.10.10.440
1zgaHMKIsoflavone 4'-O-methyltransferase/0.440
2broDF2Serine/threonine-protein kinase Chk12.7.11.10.440
2ckeIQUDeath-associated protein kinase 2/0.440
2e9p77ASerine/threonine-protein kinase Chk12.7.11.10.440
2iw6QQ2Cyclin-dependent kinase 22.7.11.220.440
2j0lANPFocal adhesion kinase 12.7.10.20.440
2wtiWTISerine/threonine-protein kinase Chk22.7.11.10.440
4gii0X6Non-receptor tyrosine-protein kinase TYK22.7.10.20.440
4jrvKJVEpidermal growth factor receptor2.7.10.10.440
5auuLU2Death-associated protein kinase 12.7.11.10.440