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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
3qri919Tyrosine-protein kinase ABL12.7.10.2

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity
Align
3qri919Tyrosine-protein kinase ABL12.7.10.21.000
2ofv242Tyrosine-protein kinase Lck2.7.10.20.538
2hziJINTyrosine-protein kinase ABL12.7.10.20.536
3be2RAJVascular endothelial growth factor receptor 22.7.10.10.534
2gqg1N1Tyrosine-protein kinase ABL12.7.10.20.529
1m52P17Tyrosine-protein kinase ABL12.7.10.20.518
3prfFP3Serine/threonine-protein kinase B-raf2.7.11.10.518
2f4jVX6Tyrosine-protein kinase ABL12.7.10.20.514
4ckrDI1Epithelial discoidin domain-containing receptor 12.7.10.10.511
4twnB96Ephrin type-A receptor 32.7.10.10.509
5kf8ACOPredicted acetyltransferase/0.495
4phlPILPhosphodiesterase/0.494
2of2547Tyrosine-protein kinase Lck2.7.10.20.490
1obnASVIsopenicillin N synthase1.21.3.10.487
1uwhBAXSerine/threonine-protein kinase B-raf2.7.11.10.486
4jv81M1Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.484
3zkyWT4Isopenicillin N synthase1.21.3.10.482
2oh4GIGVascular endothelial growth factor receptor 22.7.10.10.481
4tyj0LIFibroblast growth factor receptor 42.7.10.10.481
1blzACVIsopenicillin N synthase1.21.3.10.480
1qpePP2Tyrosine-protein kinase Lck2.7.10.20.480
2vbdV10Isopenicillin N synthase1.21.3.10.480
3ppkFNISerine/threonine-protein kinase B-raf2.7.11.10.480
1b87ACOAac(6')-Ii protein/0.478
3d7zGK5Mitogen-activated protein kinase 14/0.478
1fdsESTEstradiol 17-beta-dehydrogenase 11.1.1.620.477
1jpaANPEphrin type-B receptor 22.7.10.10.477
3njoPYVAbscisic acid receptor PYR1/0.477
1y57MPZProto-oncogene tyrosine-protein kinase Src2.7.10.20.476
2fb8215Serine/threonine-protein kinase B-raf2.7.11.10.475
1bk0ACVIsopenicillin N synthase1.21.3.10.474
2ejzSAHDiphthine synthase/0.474
2vbpVB1Isopenicillin N synthase1.21.3.10.474
3zoiM2WIsopenicillin N synthase1.21.3.10.473
4az0S61Lysosomal protective protein3.4.16.50.473
2y60M8FIsopenicillin N synthase1.21.3.10.472
2ydoADNAdenosine receptor A2a/0.472
3g4gD71cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.472
4bbxLKFcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.472
4rgsV55Repressor protein/0.472
2oiqSTIProto-oncogene tyrosine-protein kinase Src2.7.10.20.471
1trgCB3Thymidylate synthase/0.470
2bdjHETProto-oncogene tyrosine-protein kinase Src2.7.10.20.470
2bu9HFVIsopenicillin N synthase1.21.3.10.470
3e5aVX6Aurora kinase A2.7.11.10.470
4qrc0LIFibroblast growth factor receptor 42.7.10.10.470
2r5nTPPTransketolase 1/0.469
1fdwESTEstradiol 17-beta-dehydrogenase 11.1.1.620.468
2hk51BMTyrosine-protein kinase HCK2.7.10.20.468
3vo30KFVascular endothelial growth factor receptor 22.7.10.10.468
1y2bDEEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.467
2z3uCRRCytochrome P450/0.467
4ubvCOASteroid 3-ketoacyl-CoA thiolase/0.467
4xg1LLPDiaminopimelate decarboxylase/0.467
1uzwCDHIsopenicillin N synthase1.21.3.10.466
2vxkCOAGlucosamine 6-phosphate acetyltransferase, putative/0.466
2y6fM9FIsopenicillin N synthase1.21.3.10.466
3ac2KSETyrosine-protein kinase Lck2.7.10.20.466
3t5iSER_SER_CMT_FARRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.465
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.465
4hvs647Mast/stem cell growth factor receptor Kit2.7.10.10.465
2of4979Tyrosine-protein kinase Lck2.7.10.20.464
2q0gUPUPoly(A) polymerase, putative/0.462
2vcmM11Isopenicillin N synthase1.21.3.10.462
3ac1KZITyrosine-protein kinase Lck2.7.10.20.462
3cr0809Wee1-like protein kinase2.7.10.20.462
3e92G6AMitogen-activated protein kinase 14/0.462
4cjx9L9C-1-tetrahydrofolate synthase, cytoplasmic, putative/0.461
1ejiTHFSerine hydroxymethyltransferase, cytosolic/0.460
2xynVX6Abelson tyrosine-protein kinase 22.7.10.20.460
2ykvIK2Beta-transaminase/0.460
3biz61EWee1-like protein kinase2.7.10.20.460
3vwdACOAlpha-tubulin N-acetyltransferase 1/0.460
4bfpSWYTankyrase-22.4.2.300.460
2pg0FADAcyl-CoA dehydrogenase/0.459
2xkdT3MSerine/threonine-protein kinase Nek22.7.11.10.459
3ac3KSHTyrosine-protein kinase Lck2.7.10.20.459
4mxoDB8Proto-oncogene tyrosine-protein kinase Src2.7.10.20.459
4wo5324Serine/threonine-protein kinase B-raf2.7.11.10.459
7catNDPCatalase1.11.1.60.459
4q0kGA3Phytohormone-binding protein/0.458
3gytDL4Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.457
3bgxTMPThymidylate synthase/0.456
3ns2PYVAbscisic acid receptor PYL2/0.456
5kgjACOPredicted acetyltransferase/0.456
2cvzNDP3-hydroxyisobutyrate dehydrogenase/0.455
4xx0COASuccinate--CoA ligase [ADP/GDP-forming] subunit alpha, mitochondrial6.2.1.40.455
1cg6MTAS-methyl-5'-thioadenosine phosphorylase/0.454
1jx0DFVChalcone--flavonone isomerase 15.5.1.60.454
1oc1ASVIsopenicillin N synthase1.21.3.10.454
2wo7ASVIsopenicillin N synthase1.21.3.10.454
3pg3DG7Mitogen-activated protein kinase 14/0.454
4dvi2IWTankyrase-12.4.2.300.454
4twpAXITyrosine-protein kinase ABL12.7.10.20.454
5g53NECAdenosine receptor A2a/0.454
5k2aZMAAdenosine receptor A2a/0.454
4rh10TTSpore photoproduct lyase/0.453
5hwqCAAHydroxymethylglutaryl-CoA synthase/0.453
5iubCLRAdenosine receptor A2a/0.453
3emlZMAAdenosine receptor A2a/0.453
1qjfACSIsopenicillin N synthase1.21.3.10.452
2qu5276Vascular endothelial growth factor receptor 22.7.10.10.452
2vwx7X4Ephrin type-B receptor 42.7.10.10.452
2xkfBX1Serine/threonine-protein kinase Nek22.7.11.10.452
3l0lHC3Nuclear receptor ROR-gamma/0.452
3nugNADPyridoxal 4-dehydrogenase1.1.1.1070.452
4lb2DM5Serum albumin/0.452
4mxeACON-acetyltransferase ESCO12.3.10.452
4n3l2FNProthrombin3.4.21.50.452
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.452
2p2h994Vascular endothelial growth factor receptor 22.7.10.10.451
3aw9NADNAD-dependent epimerase/dehydratase/0.451
3bloQEIQueuine tRNA-ribosyltransferase2.4.2.290.451
3ansS38Bifunctional epoxide hydrolase 23.3.2.100.450
3c35KAIGlutamate receptor ionotropic, kainate 1/0.450
4a322CDGlycylpeptide N-tetradecanoyltransferase/0.450
4bj9UHBTankyrase-22.4.2.300.450
4c77N01Phenylacetone monooxygenase1.14.13.920.450
4fk3325Serine/threonine-protein kinase B-raf2.7.11.10.450
4xqcNADHomospermidine synthase2.5.1.440.450
3ac5KZMTyrosine-protein kinase Lck2.7.10.20.449
4adcPLPSuccinylornithine transaminase2.6.1.810.449
4eh8IRGMitogen-activated protein kinase 14/0.449
4fcb0T7cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.449
4kp71UQ1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic1.1.1.2670.449
1tkcM6TTransketolase 12.2.1.10.448
2i1m5CNMacrophage colony-stimulating factor 1 receptor2.7.10.10.448
2pk3A2RGDP-6-deoxy-D-mannose reductase/0.448
2r2mI50Prothrombin3.4.21.50.448
2x7hPFNProstaglandin reductase 310.448
2y6o1N1Ephrin type-A receptor 42.7.10.10.448
3b8r887Vascular endothelial growth factor receptor 22.7.10.10.448
3nr4PYVAbscisic acid receptor PYL2/0.448
4hqvQEIQueuine tRNA-ribosyltransferase2.4.2.290.448
4z44FADFlavin-dependent tryptophan halogenase PrnA1.14.19.90.448
5a2yUTPMitochondrial poly(A) polymerase/0.448
5iu4ZMAAdenosine receptor A2a/0.448
2b0m201Dihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.447
2bdf24AProto-oncogene tyrosine-protein kinase Src2.7.10.20.447
3mcyZH1FimH/0.447
3w0c6DSVitamin D3 receptor/0.447
3w0iO11Vitamin D3 receptor/0.447
3w2cN15Aurora kinase A2.7.11.10.447
4b5oACOAlpha-tubulin N-acetyltransferase 1/0.447
4biwANPSensor histidine kinase CpxA/0.447
5cvcPLPSerine racemase/0.447
1sd1FMCS-methyl-5'-thioadenosine phosphorylase/0.446
1ta6177Prothrombin3.4.21.50.446
2dq7STUTyrosine-protein kinase Fyn2.7.10.20.446
2givACOHistone acetyltransferase KAT8/0.446
3cqeP91Wee1-like protein kinase2.7.10.20.446
3dxmN24Actin-related protein 3/0.446
3eigMTXDihydrofolate reductase1.5.1.30.446
3p2oNADBifunctional protein FolD/0.446
3q3cNADNAD-dependent L-serine dehydrogenase/0.446
4ajdF04cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
4ajfF03cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
5hwrCOAHydroxymethylglutaryl-CoA synthase/0.446
1mvsDTMDihydrofolate reductase1.5.1.30.445
2in6839Wee1-like protein kinase2.7.10.20.445
2zva1N1Tyrosine-protein kinase Lyn2.7.10.20.445
3ar4TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.445
3bxxQUEDihydroflavonol 4-reductase1.1.1.2190.445
4ddrMMVDihydrofolate reductase1.5.1.30.445
4h6zACOAlpha-tubulin N-acetyltransferase 1/0.445
4riyADPEpidermal growth factor receptor2.7.10.10.445
1mewXMPInosine-5'-monophosphate dehydrogenase/0.444
1pq944BOxysterols receptor LXR-beta/0.444
2b03TUDPhospholipase A2, major isoenzyme3.1.1.40.444
2cdz23DSerine/threonine-protein kinase PAK 42.7.11.10.444
2cgpCMPcAMP-activated global transcriptional regulator CRP/0.444
2eeqSAHDiphthine synthase/0.444
2g1r3IGRenin3.4.23.150.444
2gjlFMNNitronate monooxygenase1.13.12.160.444
2gjnFMNNitronate monooxygenase1.13.12.160.444
2qo9ANPEphrin type-A receptor 32.7.10.10.444
2vmyFFOSerine hydroxymethyltransferase/0.444
3dhcCYKN-acyl homoserine lactonase AiiA3.1.1.810.444
3dopNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.444
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
3el7PD3Proto-oncogene tyrosine-protein kinase Src2.7.10.20.444
3hkyIX6Genome polyprotein2.7.7.480.444
3hv3R49Mitogen-activated protein kinase 14/0.444
3uozFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.444
3w5eNVWcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.444
4az3S35Lysosomal protective protein3.4.16.50.444
4dggI76Proto-oncogene tyrosine-protein kinase Src2.7.10.20.444
4u07ATPAdenosine monophosphate-protein transferase FICD2.7.7.n10.444
5dbfNDPIridoid synthase1.3.1.990.444
5uviZMAAdenosine receptor A2a/0.444
1f3eDPZQueuine tRNA-ribosyltransferase2.4.2.290.443
2z2w770Wee1-like protein kinase2.7.10.20.443
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.443
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.443
4o2z046Mitogen-activated protein kinase/0.443
4u9zCOAAlpha-tubulin N-acetyltransferase 1/0.443
5iu86DZAdenosine receptor A2a/0.443
1bucFADAcyl-CoA dehydrogenase, short-chain specific1.3.8.10.442
1d3dBZTProthrombin3.4.21.50.442
1d6w00RProthrombin3.4.21.50.442
1fwkADPHomoserine kinase2.7.1.390.442
1kceCB3Thymidylate synthase/0.442
1kqgMGDFormate dehydrogenase, nitrate-inducible, major subunit1.1.5.60.442
1s7lCOAAcetyl transferase/0.442
2o4rVD5Vitamin D3 receptor/0.442
2zm1KSFTyrosine-protein kinase Lck2.7.10.20.442
3i0pNADMalate dehydrogenase, putative/0.442
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.442
3ntdFADFAD-dependent pyridine nucleotide-disulphide oxidoreductase/0.442
3p9tTCLRepressor/0.442
3q71AR6Poly [ADP-ribose] polymerase 142.4.2.300.442
3sn7540cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.442
3wd9QPCcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.442
4gs4ACOAlpha-tubulin N-acetyltransferase 1/0.442
4if5ACOAlpha-tubulin N-acetyltransferase 1/0.442
4jv618FRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.442
4kxn6K62'-deoxynucleoside 5'-phosphate N-hydrolase 1/0.442
1mg5NAIAlcohol dehydrogenase1.1.1.10.441
1y2d4DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441
2hamC33Vitamin D3 receptor/0.441
2uuk897Prothrombin3.4.21.50.441
2weyEV1cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.441
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.441
3lmgANPReceptor tyrosine-protein kinase erbB-32.7.10.10.441
3njoP2MAbscisic acid receptor PYR1/0.441
3pm9FADPutative oxidoreductase/0.441
3r5yF42Uncharacterized protein/0.441
3wdsNADNADH-dependent quinuclidinone reductase/0.441
4gh5NADShort-chain dehydrogenase/reductase SDR/0.441
4h7zGUNQueuine tRNA-ribosyltransferase2.4.2.290.441
5ajqDB8Serine/threonine-protein kinase 102.7.11.10.441
5hwoHMGHydroxymethylglutaryl-CoA synthase/0.441
5kf9ACOPredicted acetyltransferase/0.441
1g63FMNEpidermin decarboxylase4.1.10.440
1wp4NDP3-hydroxyisobutyrate dehydrogenase/0.440
2bjhFERFeruloyl esterase A3.1.1.730.440
2ivvPP1Proto-oncogene tyrosine-protein kinase receptor Ret2.7.10.10.440
2jbsFMNp-hydroxyphenylacetate 3-hydroxylase, oxygenase component/0.440
2rc4ACOHistone acetyltransferase KAT6A/0.440
2xk6EQHSerine/threonine-protein kinase Nek22.7.11.10.440
2xkeWI2Serine/threonine-protein kinase Nek22.7.11.10.440
3ad6KSCTyrosine-protein kinase Lck2.7.10.20.440
3ar7TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.440
3bgxMEFThymidylate synthase/0.440
3rix923Luciferin 4-monooxygenase1.13.12.70.440
3vs4VSFTyrosine-protein kinase HCK2.7.10.20.440
4ag8AXIVascular endothelial growth factor receptor 22.7.10.10.440
4bmpFMNProtein NrdI/0.440
4fhf0TTSpore photoproduct lyase/0.440
4h380YXDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.440
4uugPXGBranched-chain amino acid aminotransferase, putative/0.440
4x24TDI5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase/0.440