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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
2giuFBREstrogen receptor beta

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity
Align
2giuFBREstrogen receptor beta/1.000
2z4bDC8Estrogen receptor beta/0.564
1ndeMONEstrogen receptor beta/0.525
1sj0E4DEstrogen receptor/0.509
3qlrNDPDihydrofolate reductase1.5.1.30.505
2iltNN1Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.501
1xu9CPSCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.500
2jf9OHTEstrogen receptor/0.498
2h2qNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.497
3tqaNDPDihydrofolate reductase/0.495
1ai9NDPDihydrofolate reductase1.5.1.30.494
1xp6AIUEstrogen receptor/0.494
2pogWSTEstrogen receptor/0.490
2y05NAPProstaglandin reductase 1/0.489
3irm1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.488
1m78NDPDihydrofolate reductase1.5.1.30.487
1osvCHCBile acid receptor/0.487
4iui1GQEstrogen receptor/0.486
1rx1NAPDihydrofolate reductase1.5.1.30.485
1s9pDESEstrogen-related receptor gamma/0.483
3qlsNDPDihydrofolate reductase1.5.1.30.483
2qe4JJ3Estrogen receptor/0.477
4ivy1GTEstrogen receptor/0.477
1drhNAPDihydrofolate reductase1.5.1.30.475
1ot7CHCBile acid receptor/0.474
2b52D42Cyclin-dependent kinase 22.7.11.220.474
2cig1DGDihydrofolate reductase1.5.1.30.474
1errRALEstrogen receptor/0.473
1ia1NDPDihydrofolate reductase1.5.1.30.473
1l2iETCEstrogen receptor/0.473
3d3eD3ECorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.473
4h9506UDihydrofolate reductase1.5.1.30.473
4pxmESTEstrogen receptor/0.473
1uomPTIEstrogen receptor/0.472
2fzwNADAlcohol dehydrogenase class-31.1.1.10.472
3oafOAGDihydrofolate reductase1.5.1.30.472
4crsAGSSerine/threonine-protein kinase N22.7.11.130.472
1hnvTBOGag-Pol polyprotein2.7.7.490.471
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.471
4iw8KN3Estrogen receptor/0.471
1ia4TQ6Dihydrofolate reductase1.5.1.30.470
2znq401Peroxisome proliferator-activated receptor delta/0.470
4hw319GInduced myeloid leukemia cell differentiation protein Mcl-1/0.470
1dg8NDPDihydrofolate reductase1.5.1.30.469
2q70DC8Estrogen receptor/0.469
4tuvCPZCytochrome P450 1191.140.469
1x7e244Estrogen receptor/0.468
3wmxNADNAD dependent epimerase/dehydratase/0.467
3byzH11Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.465
3imxB84Glucokinase2.7.1.20.465
4gt3ATPMitogen-activated protein kinase 12.7.11.240.465
3ewsADPATP-dependent RNA helicase DDX19B3.6.4.130.464
3nxxNDPDihydrofolate reductase1.5.1.30.464
4fz60VGTyrosine-protein kinase SYK2.7.10.20.464
4yzcSTUSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.10.464
1rx6DDFDihydrofolate reductase1.5.1.30.463
2ewpTXFEstrogen-related receptor gamma/0.463
2prh238Dihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.463
3uicNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.463
4j26ESTEstrogen receptor beta/0.463
4jq8KJ8Epidermal growth factor receptor2.7.10.10.463
5eccNAPDehydrofolate reductase type I/0.463
1yinCM3Estrogen receptor/0.462
2a1tFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.462
3clbNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.462
3ey4352Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.462
3tmz06XCytochrome P450 2B41.14.14.10.462
4e5yNDPGDP-L-fucose synthase1.1.1.2710.462
4wa9AXITyrosine-protein kinase ABL12.7.10.20.462
2f4bEHAPeroxisome proliferator-activated receptor gamma/0.461
2j3kNAPNADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.461
1qxlFR8Adenosine deaminase3.5.4.40.460
3cxhSMACytochrome b/0.460
3vt9YI4Vitamin D3 receptor/0.460
3zw9NADPeroxisomal bifunctional enzyme1.1.1.350.460
4fr4STUSerine/threonine-protein kinase 32A2.7.11.10.460
4qa2SHHHistone deacetylase 83.5.1.980.460
1pn3TYDdTDP-epi-vancosaminyltransferase2.4.1.3110.459
3h18PMSEsterase/lipase/0.459
3ha85JZMitogen-activated protein kinase 14/0.459
4nbwNADShort-chain dehydrogenase/reductase SDR/0.459
5cp8TCUEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.459
1kqgHQOFormate dehydrogenase, nitrate-inducible, cytochrome b556(Fdn) subunit/0.458
2y03Y01Beta-1 adrenergic receptor/0.458
3eej53RUncharacterized protein/0.458
4cd2FOLDihydrofolate reductase1.5.1.30.458
4iu71GMEstrogen receptor/0.458
4jv618FRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.458
4l425FIRibosomal protein S6 kinase beta-12.7.11.10.458
1hquHBYGag-Pol polyprotein2.7.7.490.457
2dubCO8Enoyl-CoA hydratase, mitochondrial4.2.1.170.457
2gpuOHTEstrogen-related receptor gamma/0.457
2j3jHC4NADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.457
4iv21GREstrogen receptor/0.457
4jvf17XRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.457
4ubsDIFPentalenic acid synthase1.14.15.110.457
5c8wPCGcGMP-dependent protein kinase 22.7.11.120.457
2b0m201Dihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.456
2px2SAHGenome polyprotein2.7.7.480.456
3d84NDPDihydrofolate reductase1.5.1.30.456
4biiPYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.456
1zhwHC2Oxysterol-binding protein homolog 4/0.455
3vt8YI3Vitamin D3 receptor/0.455
4j24ESTEstrogen receptor beta/0.455
4m87NADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.455
4yr9NADL-threonine 3-dehydrogenase, mitochondrial1.1.1.1030.455
1d3hA26Dihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.454
1hvyD16Thymidylate synthase2.1.1.450.454
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.454
3ch6311Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.454
4fyn0VETyrosine-protein kinase SYK2.7.10.20.454
4xiwAZMCarbonic anhydrase, alpha type/0.454
1iyzNDPProbable quinone oxidoreductase/0.453
2b00GCHPhospholipase A2, major isoenzyme3.1.1.40.453
2c0iL1GTyrosine-protein kinase HCK2.7.10.20.453
3r7yZ04Cyclin-dependent kinase 22.7.11.220.453
3vrwYS5Vitamin D3 receptor/0.453
4bf2STUMitogen-activated protein kinase kinase kinase 52.7.11.250.453
4h9814QUncharacterized protein/0.453
4ivw1GJEstrogen receptor/0.453
4o8aFADBifunctional protein PutA1.2.1.880.453
4oj4DIFPeroxisome proliferator-activated receptor gamma/0.453
1fm4DXCMajor pollen allergen Bet v 1-L/0.452
2c0oL2GTyrosine-protein kinase HCK2.7.10.20.452
3oqfS51Renin3.4.23.150.452
3ua506XCytochrome P450 2B61.14.130.452
3zc6VFCTyrosine-protein kinase JAK32.7.10.20.452
4kl9NDPDihydrofolate reductase1.5.1.30.452
1rx4DDFDihydrofolate reductase1.5.1.30.451
1zucT98Progesterone receptor/0.451
2h447CAcGMP-specific 3',5'-cyclic phosphodiesterase/0.451
2qd5CHDFerrochelatase, mitochondrial4.99.1.10.451
3naxMP73-phosphoinositide-dependent protein kinase 12.7.11.10.451
3t2zFADSulfide-quinone reductase/0.451
3up3XCAaceDAF-12/0.451
4c4jX21Dual specificity protein kinase TTK2.7.12.10.451
4dl9NADS-(hydroxymethyl)glutathione dehydrogenase/0.451
4elb34SDihydrofolate reductase/0.451
4g95OAGDihydrofolate reductase1.5.1.30.451
5g53NECAdenosine receptor A2a/0.451
1lsoNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.450
1qv1CZHObelin/0.450
1ztfXYARIO-type serine/threonine-protein kinase Rio12.7.11.10.450
2iodMYCDihydroflavonol 4-reductase1.1.1.2190.450
2jj3JJ3Estrogen receptor beta/0.450
3eluSAMMethyltransferase/0.450
3invNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.450
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.450
3lamKRPGag-Pol polyprotein2.7.7.490.450
4h9614QDihydrofolate reductase1.5.1.30.450
4nb6444Nuclear receptor ROR-gamma/0.450
4o1mNADEnoyl-acyl carrier reductase/0.450
5hyrESTEstrogen receptor/0.450
2aruATPLipoate-protein ligase A subunit 1/0.449
2p15EZTEstrogen receptor/0.449
3dl9V2HVitamin D 25-hydroxylase/0.449
3g49NAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.449
3h1vTK1Glucokinase2.7.1.20.449
4ly91YYGlucokinase regulatory protein/0.449
1t9gFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.448
1xqcAEJEstrogen receptor/0.448
2p7zOHTEstrogen-related receptor gamma/0.448
2xvdAS6Ephrin type-B receptor 42.7.10.10.448
3gqvNAPEnoyl reductase LovC10.448
3l08ZIGPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.448
4fstHK4Serine/threonine-protein kinase Chk12.7.11.10.448
4iaq2GM5-hydroxytryptamine receptor 1B/0.448
4pd6URINucleoside permease/0.448
1hpzAAPGag-Pol polyprotein2.7.7.490.447
1lhvNOGSex hormone-binding globulin/0.447
2y30SM8Putative repressor SimReg2/0.447
2zgzGNPPlasmid segregation protein ParM/0.447
3h0aD30Peroxisome proliferator-activated receptor gamma/0.447
3qlwN22Dihydrofolate reductase1.5.1.30.447
3vsoEK1Peroxisome proliferator-activated receptor gamma/0.447
4bquCLRJapanin/0.447
5dxgESTEstrogen receptor/0.447
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.446
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.446
2qgtEEDEstrogen receptor/0.446
2qo6CHDFatty acid-binding protein 10-A, liver basic/0.446
3ffi3OBGag-Pol polyprotein2.7.7.490.446
3tm5SFGUncharacterized protein/0.446
4fjz4FJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.446
4j6bPLOCytochrome P450 monooxygenase/0.446
1kyoSMACytochrome b/0.445
1rt2TNKGag-Pol polyprotein2.7.7.490.445
1rx8NAPDihydrofolate reductase1.5.1.30.445
1tz8DESTransthyretin/0.445
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.445
2j7yE3OEstrogen receptor beta/0.445
2p4yC03Peroxisome proliferator-activated receptor gamma/0.445
2qo5CHDFatty acid-binding protein 10-A, liver basic/0.445
3abaFLICytochrome P450/0.445
3irxUDRGag-Pol polyprotein2.7.7.490.445
3oq13OQCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.445
3w5tLHPVitamin D3 receptor/0.445
3zk5Z18Cytochrome P450 monooxygenase PikC/0.445
4ele31IDihydrofolate reductase/0.445
4fm5DF0Prostaglandin G/H synthase 21.14.99.10.445
4g73FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial1.6.5.90.445
4jvb1M0Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.445
4n1fCZHObelin/0.445
4qpmADPMitotic checkpoint serine/threonine-protein kinase BUB12.7.11.10.445
1cm0COAHistone acetyltransferase KAT2B2.3.1.480.444
1fwkADPHomoserine kinase2.7.1.390.444
1g5sI17Cyclin-dependent kinase 22.7.11.220.444
1menGARTrifunctional purine biosynthetic protein adenosine-32.1.2.20.444
1ml6GBXGlutathione S-transferase A22.5.1.180.444
1og5SWFCytochrome P450 2C9/0.444
1rrmAPRLactaldehyde reductase1.1.1.770.444
3lanKBTGag-Pol polyprotein2.7.7.490.444
3nwyGTPUridylate kinase/0.444
3ollESTEstrogen receptor beta/0.444
3rukAERSteroid 17-alpha-hydroxylase/17,20 lyase/0.444
3stv3HOMethylketone synthase I/0.444
3zkyWT4Isopenicillin N synthase1.21.3.10.444
4ftm1HKSerine/threonine-protein kinase Chk12.7.11.10.444
4fuyEK2Mitogen-activated protein kinase 12.7.11.240.444
4hge15VTyrosine-protein kinase JAK2/0.444
4ktc1X3Genome polyprotein3.4.21.980.444
4zjuNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.444
1ma0NADAlcohol dehydrogenase class-31.1.1.10.443
1uuoBRFDihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.443
2b37NADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.443
2obyNAPQuinone oxidoreductase PIG310.443
2pl0STITyrosine-protein kinase Lck2.7.10.20.443
3gphOIDCytochrome P450 2E11.14.130.443
3rr3FLRProstaglandin G/H synthase 21.14.99.10.443
3uudESTEstrogen receptor/0.443
4hnc0UTMandelate racemase/0.443
4ia3BIVVitamin D3 receptor A/0.443
4jbtASDCytochrome P450 monooxygenase/0.443
4o761M3Bromodomain-containing protein 4/0.443
5ajqDB8Serine/threonine-protein kinase 102.7.11.10.443
1felFENRetinol-binding protein 4/0.442
1u3r338Estrogen receptor beta/0.442
1upw444Oxysterols receptor LXR-beta/0.442
1xuoLA1Integrin alpha-L/0.442
2p33J07Mitogen-activated protein kinase 102.7.11.240.442
2y01Y01Beta-1 adrenergic receptor/0.442
3d5wADPSerine/threonine-protein kinase PLK/0.442
3hv6R39Mitogen-activated protein kinase 14/0.442
3vs7KS1Tyrosine-protein kinase HCK2.7.10.20.442
3w5p4OAVitamin D3 receptor/0.442
3wy0COAUncharacterized protein/0.442
4c2xNHWGlycylpeptide N-tetradecanoyltransferase 2/0.442
4uyaAGSMitogen-activated protein kinase kinase kinase 212.7.11.250.442
5k2cZMAAdenosine receptor A2a/0.442
5k2aZMAAdenosine receptor A2a/0.442
1a27ESTEstradiol 17-beta-dehydrogenase 11.1.1.620.441
1tj1FADBifunctional protein PutA1.5.5.20.441
1tlcF89Thymidylate synthase/0.441
2dvlFADAcyl-CoA dehydrogenase/0.441
2hcdBIVVitamin D3 receptor A/0.441
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.441
3c0g3AMPeripheral plasma membrane protein CASK2.7.11.10.441
3oibFDAPutative acyl-CoA dehydrogenase/0.441
3qk0QK0Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
3sgtP09Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)/0.441
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.441
4e4m0NHTyrosine-protein kinase JAK2/0.441
4elf35IDihydrofolate reductase/0.441
4wdb2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.441
5uviZMAAdenosine receptor A2a/0.441
3uzcT4EAdenosine receptor A2a/0.441
1ie4T44Transthyretin/0.440
1j3jNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.440
1s19MC9Vitamin D3 receptor/0.440
2hqpNDPDihydrofolate reductase1.5.1.30.440
3el8PD5Proto-oncogene tyrosine-protein kinase Src2.7.10.20.440
3eldSFGMethyltransferase/0.440
3h1jSMACytochrome b/0.440
3lfeZ84Mitogen-activated protein kinase 14/0.440
3sqq99ZCyclin-dependent kinase 22.7.11.220.440
3vtdTKDVitamin D3 receptor/0.440
4bb3KKAIsopenicillin N synthase1.21.3.10.440
4e4n0NLTyrosine-protein kinase JAK1/0.440
4fv1EK4Mitogen-activated protein kinase 12.7.11.240.440
4gmgNAPYersiniabactin biosynthetic protein YbtU/0.440
4japCOAAlpha-pyrone synthesis polyketide synthase-like Pks112.3.10.440
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.440