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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
4equG6ISerine/threonine-protein kinase 102.7.11.1

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
4equG6ISerine/threonine-protein kinase 102.7.11.11.000
3oezSTIProto-oncogene tyrosine-protein kinase Src2.7.10.20.593
4agwNG7Proto-oncogene tyrosine-protein kinase Src2.7.10.20.556
4tyj0LIFibroblast growth factor receptor 42.7.10.10.546
2pl0STITyrosine-protein kinase Lck2.7.10.20.540
2rl52RLVascular endothelial growth factor receptor 22.7.10.10.532
3be2RAJVascular endothelial growth factor receptor 22.7.10.10.529
3tubFPUTyrosine-protein kinase SYK2.7.10.20.527
5k2aZMAAdenosine receptor A2a/0.526
3cth319Hepatocyte growth factor receptor2.7.10.10.523
1og5SWFCytochrome P450 2C9/0.520
2jc6QPPCalcium/calmodulin-dependent protein kinase type 1D2.7.11.170.517
5k2dZMAAdenosine receptor A2a/0.516
1q5dEPBEpothilone C/D epoxidase1.140.512
5jtbZMAAdenosine receptor A2a/0.511
3njoPYVAbscisic acid receptor PYR1/0.505
5k2cZMAAdenosine receptor A2a/0.504
5uviZMAAdenosine receptor A2a/0.503
4eevL1XHepatocyte growth factor receptor2.7.10.10.499
4wo5324Serine/threonine-protein kinase B-raf2.7.11.10.499
4k9yK9YFocal adhesion kinase 12.7.10.20.498
3reyXACAdenosine receptor A2a/0.498
2qd5CHDFerrochelatase, mitochondrial4.99.1.10.496
5cpbNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.495
5k2bZMAAdenosine receptor A2a/0.495
3rfmCFFAdenosine receptor A2a/0.495
4bkjSTIEpithelial discoidin domain-containing receptor 12.7.10.10.494
3ctj320Hepatocyte growth factor receptor2.7.10.10.493
3emlZMAAdenosine receptor A2a/0.492
3ce31FNHepatocyte growth factor receptor2.7.10.10.491
3dkoIHZEphrin type-A receptor 72.7.10.10.489
3uzcT4EAdenosine receptor A2a/0.488
3b8q900Vascular endothelial growth factor receptor 22.7.10.10.487
3bfb9ODPheromone-binding protein ASP1/0.487
5g53NECAdenosine receptor A2a/0.485
2qd4CHDFerrochelatase, mitochondrial4.99.1.10.484
3lfcZ86Mitogen-activated protein kinase 14/0.484
1x8b824Wee1-like protein kinase2.7.10.20.483
3uvvREARetinoic acid receptor RXR-alpha/0.483
4biiPYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.483
4fnyI3KALK tyrosine kinase receptor2.7.10.10.483
4h1j0YHProtein-tyrosine kinase 2-beta2.7.10.20.483
3fzsB96Protein-tyrosine kinase 2-beta2.7.10.20.482
5iua6DXAdenosine receptor A2a/0.482
3fzt4JZProtein-tyrosine kinase 2-beta2.7.10.20.481
3t8xT8XT-cell surface glycoprotein CD1b/0.481
4j6cSTRCytochrome P450 monooxygenase/0.481
2fb8215Serine/threonine-protein kinase B-raf2.7.11.10.479
4j6bPLOCytochrome P450 monooxygenase/0.479
4bbxLKFcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.478
3bfa9ODOdorant binding protein ASP1/0.477
3d74NBBPheromone-binding protein ASP1/0.477
1pkfEPDEpothilone C/D epoxidase1.140.476
2z2w770Wee1-like protein kinase2.7.10.20.476
3w1wCHDFerrochelatase, mitochondrial4.99.1.10.476
4i6f1C7Serine/threonine-protein kinase PLK22.7.11.210.476
4rh10TTSpore photoproduct lyase/0.476
2gvcFADThiol-specific monooxygenase1.14.130.475
4dscA8SAbscisic acid receptor PYL3/0.475
2xvw9NRSerum albumin/0.474
2ydoADNAdenosine receptor A2a/0.474
3g4iD71cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.474
3qm4PN0Cytochrome P450 2D6/0.474
4eiyZMAAdenosine receptor A2a/0.474
4fk3325Serine/threonine-protein kinase B-raf2.7.11.10.474
4j6dTESCytochrome P450 monooxygenase/0.473
3d75NBBPheromone-binding protein ASP1/0.470
3l6jZ90Alr2278 protein/0.470
4j531J4Serine/threonine-protein kinase PLK12.7.11.210.470
3gcq1BUMitogen-activated protein kinase 14/0.469
3p9tTCLRepressor/0.469
4jbtASDCytochrome P450 monooxygenase/0.469
4klrCHDFerrochelatase, mitochondrial4.99.1.10.469
5bp9SAHPutative methyltransferase protein/0.469
3nrrD16Bifunctional dihydrofolate reductase-thymidylate synthase/0.468
4bb5HD2Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.468
4ddl0JQcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.468
2gjlFMNNitronate monooxygenase1.13.12.160.467
3w5eNVWcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.467
3f82353Hepatocyte growth factor receptor2.7.10.10.466
4j521J3Serine/threonine-protein kinase PLK12.7.11.210.466
2bakAQZMitogen-activated protein kinase 14/0.465
2y46MIVMycinamicin IV hydroxylase/epoxidase/0.465
3eta351Insulin receptor2.7.10.10.465
3k47D09Dihydrofolate reductase1.5.1.30.465
3vg9ZMAAdenosine receptor A2a/0.465
4a9yAQZMitogen-activated protein kinase 14/0.465
4jqh1MFAlr2278 protein/0.465
4kaoKAOFocal adhesion kinase 12.7.10.20.465
2owb626Serine/threonine-protein kinase PLK12.7.11.210.463
2rabNADGlutathione amide reductase/0.463
2xk85R1Serine/threonine-protein kinase Nek22.7.11.10.463
4l425FIRibosomal protein S6 kinase beta-12.7.11.10.463
2xvv9DNSerum albumin/0.461
3irxUDRGag-Pol polyprotein2.7.7.490.461
1m79MQ1Dihydrofolate reductase1.5.1.30.460
2xk4OL2Serine/threonine-protein kinase Nek22.7.11.10.460
3vf60H6Glucokinase2.7.1.20.460
4iah1DXAlr2278 protein/0.460
3qakUKAAdenosine receptor A2a/0.460
1ia3TQ5Dihydrofolate reductase1.5.1.30.459
2ewaSB2Mitogen-activated protein kinase 14/0.459
3d73NBBPheromone-binding protein ASP1/0.459
1u0hONMAdenylate cyclase type 2/0.458
1u0hONMAdenylate cyclase type 5/0.458
1x8lOXRRetinol dehydratase/0.458
1zgaHMKIsoflavone 4'-O-methyltransferase/0.458
4hf415HcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.458
4mvh2F5cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.458
5iu86DZAdenosine receptor A2a/0.458
1uhoVDNcGMP-specific 3',5'-cyclic phosphodiesterase/0.457
1y60H4M5,6,7,8-tetrahydromethanopterin hydro-lyase4.2.1.1470.457
2a19ANPInterferon-induced, double-stranded RNA-activated protein kinase2.7.11.10.457
2zcqB65Dehydrosqualene synthase/0.457
3gb4D3MDdmC/0.457
3oapREARetinoic acid receptor RXR-alpha/0.457
4fcd0T6cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.457
4muw2F4cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.457
4tzt468Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.457
2ociTYCValacyclovir hydrolase3.10.456
3d3p20AcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.456
3eel53TUncharacterized protein/0.456
2gjnFMNNitronate monooxygenase1.13.12.160.455
2oiqSTIProto-oncogene tyrosine-protein kinase Src2.7.10.20.455
2xk730ESerine/threonine-protein kinase Nek22.7.11.10.455
3c3dFO12-phospho-L-lactate transferase/0.455
3u8hBHPPhospholipase A2, membrane associated/0.455
4c1iEH9cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.455
4fcb0T7cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.455
4hni16WCasein kinase I isoform epsilon2.7.11.10.455
5ckwANPUncharacterized protein/0.455
5iubCLRAdenosine receptor A2a/0.455
2bxqIMNSerum albumin/0.454
2uxhQUEHTH-type transcriptional regulator TtgR/0.454
3qpnPFKcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.454
4a4o664Serine/threonine-protein kinase PLK12.7.11.210.454
4gi2NAPCrotonyl-CoA carboxylase/reductase/0.454
4h9614QDihydrofolate reductase1.5.1.30.454
4r20AERCytochrome P450 family 17 polypeptide 2/0.454
1lb9DNQGlutamate receptor 2/0.453
1xlsREARetinoic acid receptor RXR-alpha/0.453
2io6330Wee1-like protein kinase2.7.10.20.453
2y98MIVMycinamicin IV hydroxylase/epoxidase/0.453
2ydvNECAdenosine receptor A2a/0.453
3sl6JN8cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.453
4bgePYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.453
4m8e29VRetinoic acid receptor RXR-alpha/0.453
1ia4TQ6Dihydrofolate reductase1.5.1.30.452
1rgsCMPcAMP-dependent protein kinase type I-alpha regulatory subunit/0.452
3qlwN22Dihydrofolate reductase1.5.1.30.452
1ia1TQ3Dihydrofolate reductase1.5.1.30.451
2acwUPGGlycosyltransferase/0.451
2dw4FADLysine-specific histone demethylase 1A10.451
3ar4TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.451
3biz61EWee1-like protein kinase2.7.10.20.451
3up3XCAaceDAF-12/0.451
4g34924Eukaryotic translation initiation factor 2-alpha kinase 32.7.11.10.451
5iw5NMNNADH pyrophosphatase/0.451
2in6839Wee1-like protein kinase2.7.10.20.450
3tkh07SSerine/threonine-protein kinase Chk12.7.11.10.450
4g310WHEukaryotic translation initiation factor 2-alpha kinase 32.7.11.10.450
4iarERM5-hydroxytryptamine receptor 1B/0.450
1k749CRRetinoic acid receptor RXR-alpha/0.449
2g78REACellular retinoic acid-binding protein 2/0.449
3abaFLICytochrome P450/0.449
3bi6396Wee1-like protein kinase2.7.10.20.449
3d78NBBPheromone-binding protein ASP1/0.449
4k4j1O8Retinoic acid receptor RXR-alpha/0.449
1disBDMDihydrofolate reductase1.5.1.30.448
1efaNPFLactose operon repressor/0.448
1udtVIAcGMP-specific 3',5'-cyclic phosphodiesterase/0.448
1xddAAYIntegrin alpha-L/0.448
3ar5TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.448
3ar6TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.448
3cqeP91Wee1-like protein kinase2.7.10.20.448
3g58988cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.448
3ituIBMcGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.448
3slkNDPPolyketide synthase extender module 2/0.448
4gqkADPActin cross-linking toxin VgrG1/0.448
4uhrNGIAdenosine receptor A2a/0.448
1ps9MDE2,4-dienoyl-CoA reductase1.3.1.340.447
2bxoOPBSerum albumin/0.447
3gieACPSensor histidine kinase DesK2.7.13.30.447
3icsADPCoenzyme A disulfide reductase/0.447
3irm1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.447
3qppPFWcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.447
3t5iSER_SER_CMT_FARRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.447
5akk1P8Bifunctional epoxide hydrolase 23.1.3.760.447
1tbbROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.446
3ansS38Bifunctional epoxide hydrolase 23.3.2.100.446
3b9lAZZSerum albumin/0.446
3p2oNADBifunctional protein FolD/0.446
3ue4DB8Tyrosine-protein kinase ABL12.7.10.20.446
4dc0NDPPutative ketoacyl reductase1.3.10.446
4grb0XGCasein kinase II subunit alpha2.7.11.10.446
4heu15JcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
3jwm5WBDihydrofolate reductase/0.445
3o56ZG1cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.445
4htx19FcGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.445
4kfj1R0Dihydrofolate reductase1.5.1.30.445
4l17DNQGlutamate receptor 2/0.445
5dp2NAPCurF/0.445
5i2hAGIO-methyltransferase family 2/0.445
1xdkREARetinoic acid receptor beta/0.444
2bxmIMNSerum albumin/0.444
2e9dB76Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.444
2j0vGDPRac-like GTP-binding protein ARAC7/0.444
3a1l2CCCytochrome P450/0.444
3ar7TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.444
3l0lHC3Nuclear receptor ROR-gamma/0.444
3zewSTUEphrin type-B receptor 42.7.10.10.444
4ajm3A6cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.444
4i6h1C8Serine/threonine-protein kinase PLK22.7.11.210.444
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.444
1diuBDMDihydrofolate reductase1.5.1.30.443
1q3wATUGlycogen synthase kinase-3 beta2.7.11.260.443
1w4zNAPPutative ketoacyl reductase1.3.10.443
1xorZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.443
1y2c3DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.443
2uagUMAUDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.443
2z3uCRRCytochrome P450/0.443
3c1xCKKHepatocyte growth factor receptor2.7.10.10.443
3cr7PPSAdenylyl-sulfate kinase2.7.1.250.443
3htjETEbrA repressor/0.443
3jw5TOPDihydrofolate reductase/0.443
3uicNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.443
4ajfF03cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.443
4gki0JNAminoglycoside 3'-phosphotransferase AphA1-IAB/0.443
4j4vSVRNucleocapsid protein/0.443
1xomCIOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.442
1xuoLA1Integrin alpha-L/0.442
1zg32HIIsoflavone 4'-O-methyltransferase/0.442
2rhtC1E2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase3.7.1.80.442
2wqoVGKSerine/threonine-protein kinase Nek22.7.11.10.442
3d84NDPDihydrofolate reductase1.5.1.30.442
3h4vNAPPteridine reductase 11.5.1.330.442
3hcrCHDFerrochelatase, mitochondrial4.99.1.10.442
3ictADPCoenzyme A disulfide reductase/0.442
3wsbRWZFarnesyltransferase, putative/0.442
3pwhZMAAdenosine receptor A2a/0.442
1h36R88Squalene--hopene cyclase4.2.1.1290.441
1xoqROFcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441
2hxl422Serine/threonine-protein kinase Chk12.7.11.10.441
2ouu35GcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.441
2vd0D27Hematopoietic prostaglandin D synthase/0.441
2y30SM8Putative repressor SimReg2/0.441
3czr3CZCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.441
3nmpPYVAbscisic acid receptor PYL2/0.441
3ntgD72Prostaglandin G/H synthase 21.14.99.10.441
3vruYS3Vitamin D3 receptor/0.441
3w0hW12Vitamin D3 receptor/0.441
4iae1DXAlr2278 protein/0.441
4kbn25UDihydrofolate reductase1.5.1.30.441
4mprTPPBenzoylformate decarboxylase4.1.1.70.441
4yx6FMNOmega-3 polyunsaturated fatty acid synthase subunit PfaD/0.441
5ai5BSUBifunctional epoxide hydrolase 23.1.3.760.441
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.441
3uzaT4GAdenosine receptor A2a/0.441
1yc2NADNAD-dependent protein deacylase 2/0.440
2yiuSMACytochrome b/0.440
3bjhNBBOdorant binding protein ASP1/0.440
3nalDBKCalcium-transporting ATPase/0.440
4ajdF04cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.440
4bfxZVXPantothenate kinase2.7.1.330.440