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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
3jy0LYGSerine/threonine-protein kinase pim-12.7.11.1

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3jy0LYGSerine/threonine-protein kinase pim-12.7.11.11.000
3a99ANPSerine/threonine-protein kinase pim-12.7.11.10.622
4k1b1OCSerine/threonine-protein kinase pim-12.7.11.10.575
2objVRVSerine/threonine-protein kinase pim-12.7.11.10.552
1yi3LY2Serine/threonine-protein kinase pim-12.7.11.10.544
1wvxBD4Death-associated protein kinase 12.7.11.10.536
3jxwLXGSerine/threonine-protein kinase pim-12.7.11.10.533
4enxZ20Serine/threonine-protein kinase pim-12.7.11.10.531
3ma301ISerine/threonine-protein kinase pim-12.7.11.10.530
1xr1ANPSerine/threonine-protein kinase pim-12.7.11.10.527
4enyJ19Serine/threonine-protein kinase pim-12.7.11.10.517
4k181OBSerine/threonine-protein kinase pim-12.7.11.10.515
2ckeIQUDeath-associated protein kinase 2/0.512
3umxQ18Serine/threonine-protein kinase pim-12.7.11.10.512
2hog710Serine/threonine-protein kinase Chk12.7.11.10.505
5av2KMPDeath-associated protein kinase 12.7.11.10.505
4n702HXSerine/threonine-protein kinase pim-12.7.11.10.503
3bqr4RBDeath-associated protein kinase 3/0.501
1yi4ADNSerine/threonine-protein kinase pim-12.7.11.10.500
3c4eC4ESerine/threonine-protein kinase pim-12.7.11.10.500
2o65MYFSerine/threonine-protein kinase pim-12.7.11.10.496
3vbq0F5Serine/threonine-protein kinase pim-12.7.11.10.493
2j2iLY4Serine/threonine-protein kinase pim-12.7.11.10.492
4g170VNCasein kinase I isoform gamma-32.7.11.10.491
4lmuQUESerine/threonine-protein kinase pim-12.7.11.10.491
4ftiH7KSerine/threonine-protein kinase Chk12.7.11.10.489
4bdgP3JSerine/threonine-protein kinase Chk22.7.11.10.488
2hxl422Serine/threonine-protein kinase Chk12.7.11.10.487
2hy0306Serine/threonine-protein kinase Chk12.7.11.10.487
2bilBI1Serine/threonine-protein kinase pim-12.7.11.10.486
3bgpVX1Serine/threonine-protein kinase pim-12.7.11.10.486
4fg7ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.486
4ft9H4KSerine/threonine-protein kinase Chk12.7.11.10.482
2vu3LZECyclin-dependent kinase 22.7.11.220.481
3kn5ANPRibosomal protein S6 kinase alpha-52.7.11.10.481
3qk0QK0Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.481
4ftjH8KSerine/threonine-protein kinase Chk12.7.11.10.479
4ks8B49Serine/threonine-protein kinase PAK 62.7.11.10.479
4k0y1OASerine/threonine-protein kinase pim-12.7.11.10.478
1jklANPDeath-associated protein kinase 12.7.11.10.476
2xbjXBJSerine/threonine-protein kinase Chk22.7.11.10.476
2xj1XJ1Serine/threonine-protein kinase pim-12.7.11.10.476
4anuEM7Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.476
4ic7ANPMitogen-activated protein kinase 72.7.11.240.476
1xjdSTUProtein kinase C theta type2.7.11.130.475
2uzuL20cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.475
2h96893Mitogen-activated protein kinase 82.7.11.240.474
5ajqDB8Serine/threonine-protein kinase 102.7.11.10.474
1yhsSTUSerine/threonine-protein kinase pim-12.7.11.10.473
2wmqZYQSerine/threonine-protein kinase Chk12.7.11.10.473
4a7cE46Serine/threonine-protein kinase pim-12.7.11.10.473
3uixQ17Serine/threonine-protein kinase pim-12.7.11.10.472
4bibIEOMitogen-activated protein kinase kinase kinase 52.7.11.250.472
2vo0M03cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.471
2ycqUPXSerine/threonine-protein kinase Chk22.7.11.10.471
2pe24643-phosphoinositide-dependent protein kinase 12.7.11.10.470
2wtcVGMSerine/threonine-protein kinase Chk22.7.11.10.470
4mq12C3Dual specificity tyrosine-phosphorylation-regulated kinase 1A2.7.12.10.470
3kkvB99cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.469
5auwQUEDeath-associated protein kinase 12.7.11.10.469
2yitYITSerine/threonine-protein kinase Chk22.7.11.10.468
3sayOFTGlycogen synthase kinase-3 beta2.7.11.260.468
4bl1ANPMaternal embryonic leucine zipper kinase2.7.11.10.468
4mbl26LSerine/threonine-protein kinase pim-12.7.11.10.468
4bdfH3RSerine/threonine-protein kinase Chk22.7.11.10.466
4bkz1WSMaternal embryonic leucine zipper kinase2.7.11.10.465
4o0wADNAurora kinase A2.7.11.10.465
3vrzVRZTyrosine-protein kinase HCK2.7.10.20.464
4anwO92Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.464
4ez50RSCyclin-dependent kinase 62.7.11.220.464
4k110J9Proto-oncogene tyrosine-protein kinase Src2.7.10.20.464
1xwsBI1Serine/threonine-protein kinase pim-12.7.11.10.463
3cxw7CPSerine/threonine-protein kinase pim-12.7.11.10.463
4bfmANPMaternal embryonic leucine zipper kinase2.7.11.10.463
4dit0KDGlycogen synthase kinase-3 beta2.7.11.260.463
4fsnA58Serine/threonine-protein kinase Chk12.7.11.10.463
4gb90WRPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.463
2xizXIZSerine/threonine-protein kinase pim-12.7.11.10.462
2ym6YM6Serine/threonine-protein kinase Chk12.7.11.10.462
3vs7KS1Tyrosine-protein kinase HCK2.7.10.20.462
4bcmT7ZCyclin-dependent kinase 22.7.11.220.462
4dgnLU2Casein kinase II subunit alpha2.7.11.10.462
4yuqKS1Calmodulin-like domain protein kinase/0.462
3i4bZ48Glycogen synthase kinase-3 beta2.7.11.260.461
4fsrHKCSerine/threonine-protein kinase Chk12.7.11.10.461
4hle17VPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.461
5auvAGIDeath-associated protein kinase 12.7.11.10.461
3a4oSTUTyrosine-protein kinase Lyn2.7.10.20.460
3igoANPCalmodulin-domain protein kinase 1, putative/0.460
3tkh07SSerine/threonine-protein kinase Chk12.7.11.10.460
4bf2STUMitogen-activated protein kinase kinase kinase 52.7.11.250.460
2wtdZZKSerine/threonine-protein kinase Chk22.7.11.10.459
4ftt6HKSerine/threonine-protein kinase Chk12.7.11.10.459
5auxKMPDeath-associated protein kinase 12.7.11.10.459
5dgzL20Serine/threonine-protein kinase pim-12.7.11.10.459
2fvdLIACyclin-dependent kinase 22.7.11.220.457
2wouZZFTGF-beta receptor type-12.7.11.300.457
3nux3NVCyclin-dependent kinase 62.7.11.220.457
3t8oATPRhodopsin kinase/0.457
4fsuHK5Serine/threonine-protein kinase Chk12.7.11.10.457
4gmy0X5Tyrosine-protein kinase JAK2/0.457
4lm5Q17Serine/threonine-protein kinase pim-12.7.11.10.457
2yirYIRSerine/threonine-protein kinase Chk22.7.11.10.456
4ft3H1KSerine/threonine-protein kinase Chk12.7.11.10.456
4fx360KCyclin-dependent kinase 22.7.11.220.456
4ix6ADPUncharacterized protein/0.456
2wtiWTISerine/threonine-protein kinase Chk22.7.11.10.455
2ydiYDISerine/threonine-protein kinase Chk12.7.11.10.455
3axwTIDCasein kinase II subunit alpha2.7.11.10.455
3lcdBDYMacrophage colony-stimulating factor 1 receptor2.7.10.10.455
3r04UNQSerine/threonine-protein kinase pim-12.7.11.10.455
3umw596Serine/threonine-protein kinase pim-12.7.11.10.455
4btjATPTau-tubulin kinase 12.7.11.10.455
4btkDTQTau-tubulin kinase 12.7.11.10.455
4fsmHK1Serine/threonine-protein kinase Chk12.7.11.10.455
2j0m4STFocal adhesion kinase 12.7.10.20.454
2pvnP63Casein kinase II subunit alpha2.7.11.10.454
3at4CCKCasein kinase II subunit alpha2.7.11.10.454
3cy2MB9Serine/threonine-protein kinase pim-12.7.11.10.454
3mfsANPPeripheral plasma membrane protein CASK2.7.11.10.454
4yzcSTUSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.10.454
1h1wATP3-phosphoinositide-dependent protein kinase 12.7.11.10.453
3jpv1DRSerine/threonine-protein kinase pim-12.7.11.10.453
4dtk7LISerine/threonine-protein kinase pim-12.7.11.10.453
1pkdUCNCyclin-dependent kinase 22.7.11.220.452
1q8uH52cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.452
2xm9LWHSerine/threonine-protein kinase Chk22.7.11.10.452
4ezj0SCPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.452
4jlcSU6Serine/threonine-protein kinase TBK12.7.11.10.452
4n6z2HWSerine/threonine-protein kinase pim-12.7.11.10.452
2hy81STSerine/threonine-protein kinase PAK 12.7.11.10.451
4hni16WCasein kinase I isoform epsilon2.7.11.10.451
1qcfPP1Tyrosine-protein kinase HCK2.7.10.20.450
2dq7STUTyrosine-protein kinase Fyn2.7.10.20.450
2ijmADPFocal adhesion kinase 12.7.10.20.450
3bgzVX3Serine/threonine-protein kinase pim-12.7.11.10.450
3c4xATPRhodopsin kinase/0.450
3js2VM1Fibroblast growth factor receptor 1/0.450
3zw3ZW3Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.450
4gu94GUFocal adhesion kinase 12.7.10.20.450
4yhjAN2G protein-coupled receptor kinase 42.7.11.160.450
1q3wATUGlycogen synthase kinase-3 beta2.7.11.260.449
2qhm7CSSerine/threonine-protein kinase Chk12.7.11.10.449
3bhy7CPDeath-associated protein kinase 3/0.449
3sheI85MAP kinase-activated protein kinase 32.7.11.10.449
4fv9E71Mitogen-activated protein kinase 12.7.11.240.449
4h1j0YHProtein-tyrosine kinase 2-beta2.7.10.20.449
4i41MIXSerine/threonine-protein kinase pim-12.7.11.10.449
5av4GENDeath-associated protein kinase 12.7.11.10.449
1fvv107Cyclin-dependent kinase 22.7.11.220.448
3bgqVX2Serine/threonine-protein kinase pim-12.7.11.10.448
3gu6ADPDeath-associated protein kinase 12.7.11.10.448
3r02UNMSerine/threonine-protein kinase pim-12.7.11.10.448
4anv751Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.448
4fjyFJYPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.448
4flh14KPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.448
4fuxE75Mitogen-activated protein kinase 12.7.11.240.448
2ayp43ASerine/threonine-protein kinase Chk12.7.11.10.447
2bdf24AProto-oncogene tyrosine-protein kinase Src2.7.10.20.447
2vz6FEFCalcium/calmodulin-dependent protein kinase type II subunit alpha2.7.11.170.447
3cy3JN5Serine/threonine-protein kinase pim-12.7.11.10.447
3oogYTPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.447
3gc9B45Mitogen-activated protein kinase 112.7.11.240.446
4ft0HK9Serine/threonine-protein kinase Chk12.7.11.10.446
4hnf16WCasein kinase I isoform delta2.7.11.10.446
4hvi19STyrosine-protein kinase JAK32.7.10.20.446
4kbk1QGCasein kinase I isoform delta2.7.11.10.446
5dosATPAurora kinase A2.7.11.10.446
1q41IXMGlycogen synthase kinase-3 beta2.7.11.260.445
1q5kTMUGlycogen synthase kinase-3 beta2.7.11.260.445
1yvj4STTyrosine-protein kinase JAK32.7.10.20.445
2w7xD1ASerine/threonine-protein kinase Chk22.7.11.10.445
4xx9ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.445
1u54ACPActivated CDC42 kinase 1/0.444
2oh02PYcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.444
2yaaATPDeath-associated protein kinase 2/0.444
3gubGUBDeath-associated protein kinase 12.7.11.10.444
3orzBI43-phosphoinositide-dependent protein kinase 12.7.11.10.444
3vs5VSGTyrosine-protein kinase HCK2.7.10.20.444
3w2sW2REpidermal growth factor receptor2.7.10.10.444
4f4p0SBTyrosine-protein kinase SYK2.7.10.20.444
4hgl0YOCasein kinase I isoform gamma-32.7.11.10.444
4hvh19RTyrosine-protein kinase JAK32.7.10.20.444
4i22IREEpidermal growth factor receptor2.7.10.10.444
6gswGPSGlutathione S-transferase Mu 12.5.1.180.444
1qpjSTUTyrosine-protein kinase Lck2.7.10.20.443
2cgu3A3Serine/threonine-protein kinase Chk12.7.11.10.443
2gstGPSGlutathione S-transferase Mu 12.5.1.180.443
2w1fL0FAurora kinase A2.7.11.10.443
3ofm4B0Casein kinase II subunit alpha'2.7.11.10.443
4a06ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.443
4hgt15GCasein kinase I isoform delta2.7.11.10.443
4j97ACPFibroblast growth factor receptor 2/0.443
4nc3ERM5-hydroxytryptamine receptor 2B/0.443
1aq1STUCyclin-dependent kinase 22.7.11.220.442
1zp9ATPRIO-type serine/threonine-protein kinase Rio12.7.11.10.442
2hxq373Serine/threonine-protein kinase Chk12.7.11.10.442
3b2w9NHTyrosine-protein kinase Lck2.7.10.20.442
3dcv55ESerine/threonine-protein kinase pim-12.7.11.10.442
3gu7ADPDeath-associated protein kinase 12.7.11.10.442
3qlfPD5Proto-oncogene tyrosine-protein kinase Src2.7.10.20.442
3uvqFS8Mitogen-activated protein kinase 14/0.442
4grb0XGCasein kinase II subunit alpha2.7.11.10.442
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.442
4kba1QMCasein kinase I isoform delta2.7.11.10.442
1k6vXN2Gag-Pol polyprotein3.4.23.160.441
1m2rMNYCasein kinase II subunit alpha2.7.11.10.441
2xp2VGHALK tyrosine kinase receptor2.7.10.10.441
3zh8C58Protein kinase C iota type2.7.11.130.441
4fnyI3KALK tyrosine kinase receptor2.7.10.10.441
2j0lANPFocal adhesion kinase 12.7.10.20.440
2xk9XK9Serine/threonine-protein kinase Chk22.7.11.10.440
3pxkPXKFocal adhesion kinase 12.7.10.20.440
3zc6VFCTyrosine-protein kinase JAK32.7.10.20.440
4hnc0UTMandelate racemase/0.440