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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
4l425FIRibosomal protein S6 kinase beta-12.7.11.1

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
4l425FIRibosomal protein S6 kinase beta-12.7.11.11.000
3we45FIRibosomal protein S6 kinase beta-12.7.11.10.605
4l3j5FIRibosomal protein S6 kinase beta-12.7.11.10.598
4l3l5FIRibosomal protein S6 kinase beta-12.7.11.10.593
4ftt6HKSerine/threonine-protein kinase Chk12.7.11.10.510
3ambVX6cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.504
2hog710Serine/threonine-protein kinase Chk12.7.11.10.497
3zh8C58Protein kinase C iota type2.7.11.130.492
3tkh07SSerine/threonine-protein kinase Chk12.7.11.10.490
3oezSTIProto-oncogene tyrosine-protein kinase Src2.7.10.20.489
2ydiYDISerine/threonine-protein kinase Chk12.7.11.10.488
1uu8BI13-phosphoinositide-dependent protein kinase 12.7.11.10.486
3lijANPCalcium/calmodulin dependent protein kinase with a kinase domain and 4 calmodulin like EF hands/0.485
4ftiH7KSerine/threonine-protein kinase Chk12.7.11.10.484
1uvrBI83-phosphoinositide-dependent protein kinase 12.7.11.10.483
2r7b2533-phosphoinositide-dependent protein kinase 12.7.11.10.482
2xckMH43-phosphoinositide-dependent protein kinase 12.7.11.10.482
1uu3LY43-phosphoinositide-dependent protein kinase 12.7.11.10.480
2wmqZYQSerine/threonine-protein kinase Chk12.7.11.10.479
2hxl422Serine/threonine-protein kinase Chk12.7.11.10.478
4fr4STUSerine/threonine-protein kinase 32A2.7.11.10.478
4rqvATP3-phosphoinositide-dependent protein kinase 12.7.11.10.476
3rwpABQ3-phosphoinositide-dependent protein kinase 12.7.11.10.475
4k1b1OCSerine/threonine-protein kinase pim-12.7.11.10.475
1yolS03Proto-oncogene tyrosine-protein kinase Src2.7.10.20.473
4l455FIRibosomal protein S6 kinase beta-12.7.11.10.472
1zrzBI1Protein kinase C iota type2.7.11.130.471
2hy81STSerine/threonine-protein kinase PAK 12.7.11.10.471
3qd33Q53-phosphoinositide-dependent protein kinase 12.7.11.10.471
4xx9ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.471
2hxq373Serine/threonine-protein kinase Chk12.7.11.10.470
3icsADPCoenzyme A disulfide reductase/0.470
3v8w0G2Tyrosine-protein kinase ITK/TSK2.7.10.20.470
4fsnA58Serine/threonine-protein kinase Chk12.7.11.10.470
2bdf24AProto-oncogene tyrosine-protein kinase Src2.7.10.20.468
4fv9E71Mitogen-activated protein kinase 12.7.11.240.468
3wmxNADNAD dependent epimerase/dehydratase/0.467
2pe15173-phosphoinositide-dependent protein kinase 12.7.11.10.466
2qhn582Serine/threonine-protein kinase Chk12.7.11.10.466
3icrCOACoenzyme A disulfide reductase/0.466
4jayFADUDP-N-acetylenolpyruvoylglucosamine reductase/0.466
3qaiXNNKetohexokinase/0.465
4lxhC1EAlpha/beta hydrolase fold/0.465
4fsrHKCSerine/threonine-protein kinase Chk12.7.11.10.464
4enxZ20Serine/threonine-protein kinase pim-12.7.11.10.463
1okzUCN3-phosphoinositide-dependent protein kinase 12.7.11.10.462
4eutBX7Serine/threonine-protein kinase TBK12.7.11.10.462
4kikKSAInhibitor of nuclear factor kappa-B kinase subunit beta2.7.11.100.462
2xf04UBSerine/threonine-protein kinase Chk12.7.11.10.461
3a7hATPSerine/threonine-protein kinase 242.7.11.10.461
3a99ANPSerine/threonine-protein kinase pim-12.7.11.10.461
4b4oNDPEpimerase family protein SDR39U1/0.461
4bdgP3JSerine/threonine-protein kinase Chk22.7.11.10.461
4h3c0YZDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.461
1uu7BI23-phosphoinositide-dependent protein kinase 12.7.11.10.460
2c3lIDZSerine/threonine-protein kinase Chk12.7.11.10.459
3nunJMZ3-phosphoinositide-dependent protein kinase 12.7.11.10.459
4bdcODHSerine/threonine-protein kinase Chk22.7.11.10.459
2cgw3C3Serine/threonine-protein kinase Chk12.7.11.10.458
2vd5BI8Myotonin-protein kinase2.7.11.10.458
2x6dX6DAurora kinase A2.7.11.10.458
4fnyI3KALK tyrosine kinase receptor2.7.10.10.458
4u9aSTUInterleukin-1 receptor-associated kinase 42.7.11.10.458
2znnS44Peroxisome proliferator-activated receptor alpha/0.457
3t2zFADSulfide-quinone reductase/0.457
4gmy0X5Tyrosine-protein kinase JAK2/0.457
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.456
2objVRVSerine/threonine-protein kinase pim-12.7.11.10.456
3zep1NXTyrosine-protein kinase JAK32.7.10.20.456
4c4h7RODual specificity protein kinase TTK2.7.12.10.456
4l7sG7KTyrosine-protein kinase ITK/TSK2.7.10.20.456
4y8wSTRSteroid 21-hydroxylase/0.456
5dt0SKEAurora kinase A2.7.11.10.456
1wvxBD4Death-associated protein kinase 12.7.11.10.455
2ym6YM6Serine/threonine-protein kinase Chk12.7.11.10.455
3lcdBDYMacrophage colony-stimulating factor 1 receptor2.7.10.10.455
4c4g7RODual specificity protein kinase TTK2.7.12.10.455
1i7iAZ2Peroxisome proliferator-activated receptor gamma/0.454
1jpaANPEphrin type-B receptor 22.7.10.10.454
1rekB8LcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.454
1uu9BI33-phosphoinositide-dependent protein kinase 12.7.11.10.454
2ayp43ASerine/threonine-protein kinase Chk12.7.11.10.454
2b00GCHPhospholipase A2, major isoenzyme3.1.1.40.454
2w0jZATSerine/threonine-protein kinase Chk22.7.11.10.454
4fko20KCyclin-dependent kinase 22.7.11.220.454
4riyADPEpidermal growth factor receptor2.7.10.10.454
1qpjSTUTyrosine-protein kinase Lck2.7.10.20.453
2c6eHPMAurora kinase A2.7.11.10.453
2cmwOLPCasein kinase I isoform gamma-12.7.11.10.453
2ycqUPXSerine/threonine-protein kinase Chk22.7.11.10.453
3icsCOACoenzyme A disulfide reductase/0.453
3iok1P6Tyrosine-protein kinase JAK2/0.453
3tqhNDPQuinone oxidoreductase/0.453
4rupH97Vitamin D3 receptor A/0.453
3rfmCFFAdenosine receptor A2a/0.453
3a62STURibosomal protein S6 kinase beta-12.7.11.10.452
3qlg1N1Proto-oncogene tyrosine-protein kinase Src2.7.10.20.452
1uuoBRFDihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.451
2yirYIRSerine/threonine-protein kinase Chk22.7.11.10.451
4l445FIRibosomal protein S6 kinase beta-12.7.11.10.451
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.450
1ojtFADDihydrolipoyl dehydrogenase/0.450
1zeoC01Peroxisome proliferator-activated receptor gamma/0.450
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.450
2xbjXBJSerine/threonine-protein kinase Chk22.7.11.10.450
3vrzVRZTyrosine-protein kinase HCK2.7.10.20.450
4a06ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.450
4c62XWWTyrosine-protein kinase JAK2/0.450
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.450
4fsqHK3Serine/threonine-protein kinase Chk12.7.11.10.450
4ftr5HKSerine/threonine-protein kinase Chk12.7.11.10.450
4jlcSU6Serine/threonine-protein kinase TBK12.7.11.10.450
3nuuJOZ3-phosphoinositide-dependent protein kinase 12.7.11.10.449
3t14FADSulfide-quinone reductase/0.449
3vt8YI3Vitamin D3 receptor/0.449
4k181OBSerine/threonine-protein kinase pim-12.7.11.10.449
1yvj4STTyrosine-protein kinase JAK32.7.10.20.448
3ggfGVDSerine/threonine-protein kinase 26/0.448
3inmNDPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.448
3ma301ISerine/threonine-protein kinase pim-12.7.11.10.448
3q92XNBKetohexokinase/0.448
4c58824Cyclin-G-associated kinase2.7.11.10.448
4hle17VPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.448
4ji91M3Tyrosine-protein kinase JAK2/0.448
4neuQ1AReceptor-interacting serine/threonine-protein kinase 12.7.11.10.448
4ryvZEAProtein LlR18A/0.448
4xiwAZMCarbonic anhydrase, alpha type/0.448
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.447
4a1zADPKinesin-like protein KIF11/0.447
4flh14KPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.447
4nky3QZSteroid 17-alpha-hydroxylase/17,20 lyase/0.447
5ackATP3-phosphoinositide-dependent protein kinase 12.7.11.10.447
2eq9FADDihydrolipoyl dehydrogenase/0.446
2pywADPMethylthioribose kinase2.7.1.1000.446
2vn0TDZCytochrome P450 2C8/0.446
2vv9IM9Cyclin-dependent kinase 22.7.11.220.446
3rak03ZCyclin-dependent kinase 22.7.11.220.446
3sw719KCyclin-dependent kinase 22.7.11.220.446
3sz0FADSulfide-quinone reductase/0.446
3v9v21LPeroxisome proliferator-activated receptor gamma/0.446
4acm7YGCyclin-dependent kinase 22.7.11.220.446
4bdhWVISerine/threonine-protein kinase Chk22.7.11.10.446
4bf2STUMitogen-activated protein kinase kinase kinase 52.7.11.250.446
4ft0HK9Serine/threonine-protein kinase Chk12.7.11.10.446
4fx360KCyclin-dependent kinase 22.7.11.220.446
4kzoNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.446
2hy0306Serine/threonine-protein kinase Chk12.7.11.10.445
2r0uM54Serine/threonine-protein kinase Chk12.7.11.10.445
2vgpAD6Aurora kinase B-A2.7.11.10.445
3qd43Q63-phosphoinositide-dependent protein kinase 12.7.11.10.445
4ez50RSCyclin-dependent kinase 62.7.11.220.445
4ftkH9KSerine/threonine-protein kinase Chk12.7.11.10.445
4tuvCPZCytochrome P450 1191.140.445
5dpvSKEAurora kinase A2.7.11.10.445
1h1wATP3-phosphoinositide-dependent protein kinase 12.7.11.10.444
1k6pXN3Gag-Pol polyprotein3.4.23.160.444
2e9cB75Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.444
4cd2FOLDihydrofolate reductase1.5.1.30.444
4fjyFJYPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.444
4i22IREEpidermal growth factor receptor2.7.10.10.444
5ajqDB8Serine/threonine-protein kinase 102.7.11.10.444
5dr6SKEAurora kinase A2.7.11.10.444
2po7CHDFerrochelatase, mitochondrial4.99.1.10.443
4c4f7CEDual specificity protein kinase TTK2.7.12.10.443
4f640S8Fibroblast growth factor receptor 1/0.443
4fsmHK1Serine/threonine-protein kinase Chk12.7.11.10.443
4hnc0UTMandelate racemase/0.443
4q73FADBifunctional protein PutA/0.443
4ubsDIFPentalenic acid synthase1.14.15.110.443
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.442
2c7xNRBCytochrome P450 monooxygenase PikC/0.442
3at4CCKCasein kinase II subunit alpha2.7.11.10.442
3deyDHTEstradiol 17-beta-dehydrogenase 11.1.1.620.442
3klmDHTEstradiol 17-beta-dehydrogenase 11.1.1.620.442
4aw3MYVMycinamicin IV hydroxylase/epoxidase/0.442
4bl1ANPMaternal embryonic leucine zipper kinase2.7.11.10.442
4gj20XHNon-receptor tyrosine-protein kinase TYK22.7.10.20.442
5cpbNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
1pp9SMACytochrome b/0.441
1x7gNAPPutative ketoacyl reductase1.3.10.441
2j7t274Serine/threonine-protein kinase 102.7.11.10.441
2ym7YM7Serine/threonine-protein kinase Chk12.7.11.10.441
3cgoJNOMitogen-activated protein kinase 102.7.11.240.441
3eb0DRKUncharacterized protein/0.441
4bbfO19Tyrosine-protein kinase JAK2/0.441
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.441
1pjkANPCasein kinase II subunit alpha2.7.11.10.440
2izrBRKCasein kinase I isoform gamma-32.7.11.10.440
2wmtZYTSerine/threonine-protein kinase Chk12.7.11.10.440
2z3uCRRCytochrome P450/0.440
3ckxSTUSerine/threonine-protein kinase 242.7.11.10.440
3oibFDAPutative acyl-CoA dehydrogenase/0.440
3opdHIEHeat shock protein 83/0.440
3sgtP09Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)/0.440
3uyt0CKCasein kinase I isoform delta2.7.11.10.440
3vs5VSGTyrosine-protein kinase HCK2.7.10.20.440
4bdiHAUSerine/threonine-protein kinase Chk22.7.11.10.440
4bi1ZO6Dual specificity protein kinase TTK2.7.12.10.440
4biiPYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.440
4fuyEK2Mitogen-activated protein kinase 12.7.11.240.440
4l4cCAMCamphor 5-monooxygenase1.14.15.10.440
4mcv29KProto-oncogene tyrosine-protein kinase Src2.7.10.20.440
4yduADPtRNA N6-adenosine threonylcarbamoyltransferase/0.440
5cmsAPRO-acetyl-ADP-ribose deacetylase/0.440
3sn6P0GBeta-2 adrenergic receptor/0.440
3uzcT4EAdenosine receptor A2a/0.440