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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites 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
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
2aclREARetinoic acid receptor RXR-alpha

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
2aclREARetinoic acid receptor RXR-alpha/1.000
3falREARetinoic acid receptor RXR-alpha/0.593
1fbyREARetinoic acid receptor RXR-alpha/0.584
4m8hR4MRetinoic acid receptor RXR-alpha/0.583
4m8e29VRetinoic acid receptor RXR-alpha/0.579
1k749CRRetinoic acid receptor RXR-alpha/0.577
2p1v5TNRetinoic acid receptor RXR-alpha/0.572
4k4j1O8Retinoic acid receptor RXR-alpha/0.567
3fc6REARetinoic acid receptor RXR-alpha/0.566
3oapREARetinoic acid receptor RXR-alpha/0.566
1fm69CRRetinoic acid receptor RXR-alpha/0.563
1xiuREARetinoic acid receptor RXR/0.561
3uvvREARetinoic acid receptor RXR-alpha/0.557
1fm99CRRetinoic acid receptor RXR-alpha/0.552
1rdtL79Retinoic acid receptor RXR-alpha/0.543
1mznBM6Retinoic acid receptor RXR-alpha/0.537
4k6i9RARetinoic acid receptor RXR-alpha/0.537
2p1u4TNRetinoic acid receptor RXR-alpha/0.534
1xlsREARetinoic acid receptor RXR-alpha/0.529
1mvcBM6Retinoic acid receptor RXR-alpha/0.514
1uhlMEIRetinoic acid receptor RXR-beta/0.513
3h0a9RARetinoic acid receptor RXR-alpha/0.503
2oaxSNLMineralocorticoid receptor/0.491
2vn0TDZCytochrome P450 2C8/0.486
2p15EZTEstrogen receptor/0.484
2p1t3TNRetinoic acid receptor RXR-alpha/0.484
4p6wMOFGlucocorticoid receptor/0.484
1kkq471Peroxisome proliferator-activated receptor alpha/0.481
3qaiXNNKetohexokinase/0.479
4bfuZVUPantothenate kinase2.7.1.330.478
4jx1CAHCamphor 5-monooxygenase1.14.15.10.476
2y98MIVMycinamicin IV hydroxylase/epoxidase/0.475
4jbtASDCytochrome P450 monooxygenase/0.475
4lsjLSJGlucocorticoid receptor/0.475
2hw1ANPKetohexokinase/0.471
3vqsJT1Genome polyprotein/0.471
1pkfEPDEpothilone C/D epoxidase1.140.470
5hs1VORLanosterol 14-alpha demethylase/0.469
3uzaT4GAdenosine receptor A2a/0.468
1fm4DXCMajor pollen allergen Bet v 1-L/0.466
4bb3KKAIsopenicillin N synthase1.21.3.10.466
1y60H4M5,6,7,8-tetrahydromethanopterin hydro-lyase4.2.1.1470.465
2znoS44Peroxisome proliferator-activated receptor gamma/0.464
4bfpSWYTankyrase-22.4.2.300.464
4g95OAGDihydrofolate reductase1.5.1.30.464
2wpxACOOrf14/0.463
4apuA2KProgesterone receptor/0.463
1xddAAYIntegrin alpha-L/0.462
2agvTG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.462
2iebZIDEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.462
3rukAERSteroid 17-alpha-hydroxylase/17,20 lyase/0.462
4g3rCAMCamphor 5-monooxygenase1.14.15.10.462
3mfsANPPeripheral plasma membrane protein CASK2.7.11.10.461
3p9tTCLRepressor/0.461
4j6dTESCytochrome P450 monooxygenase/0.461
2rh9IGPTryptophan synthase alpha chain/0.460
4q73FADBifunctional protein PutA/0.460
2vzmNRBCytochrome P450 monooxygenase PikC/0.459
3fcoIIGCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.459
1bk0ACVIsopenicillin N synthase1.21.3.10.458
1uykPUXHeat shock protein HSP 90-alpha/0.458
2ovhAS0Progesterone receptor/0.458
2pnuENMAndrogen receptor/0.458
2puiADPMethylthioribose kinase2.7.1.1000.458
3q92XNBKetohexokinase/0.458
3qlhT27Gag-Pol polyprotein2.7.7.490.458
4fjz4FJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.458
4g1z0VPVitamin D3 receptor A/0.458
4q72FADBifunctional protein PutA/0.458
2dqsTG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.457
3vtdTKDVitamin D3 receptor/0.457
4uymVOR14-alpha sterol demethylase Cyp51B/0.457
1m9m6NINitric oxide synthase, endothelial1.14.13.390.456
2pr2DG1Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.456
2y46MIVMycinamicin IV hydroxylase/epoxidase/0.456
2znq401Peroxisome proliferator-activated receptor delta/0.456
3p99LNPLanosterol 14-alpha-demethylase/0.456
4fjyFJYPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.456
4nky3QZSteroid 17-alpha-hydroxylase/17,20 lyase/0.456
1eioGCHGastrotropin/0.455
1w2xRCPAcetyl-CoA carboxylase/0.455
2jb4A14Isopenicillin N synthase1.21.3.10.455
2qd3CHDFerrochelatase, mitochondrial4.99.1.10.455
2qd4CHDFerrochelatase, mitochondrial4.99.1.10.455
4b10NHWGlycylpeptide N-tetradecanoyltransferase/0.455
4nkvAERSteroid 17-alpha-hydroxylase/17,20 lyase/0.455
3pwhZMAAdenosine receptor A2a/0.455
1phePIYCamphor 5-monooxygenase1.14.15.10.454
1rx4DDFDihydrofolate reductase1.5.1.30.454
2yee2ECHeat shock protein HSP 90-alpha/0.454
3g70A5TRenin3.4.23.150.454
3irm1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.454
4a83DXCMajor pollen allergen Bet v 1-A/0.454
4nc3ERM5-hydroxytryptamine receptor 2B/0.454
4oeaDHTAndrogen receptor/0.454
1cjkFOKAdenylate cyclase type 2/0.453
1cjkFOKAdenylate cyclase type 5/0.453
1og5SWFCytochrome P450 2C9/0.453
1zidZIDEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.453
2pnjCHDFerrochelatase, mitochondrial4.99.1.10.453
3gobHXXDdmC/0.453
3maaFKPAdenylate cyclase type 2/0.453
3maaFKPAdenylate cyclase type 5/0.453
3of2NADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.453
3qm4PN0Cytochrome P450 2D6/0.453
3vt9YI4Vitamin D3 receptor/0.453
2aqkNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.452
2pixDHTAndrogen receptor/0.452
2qe4JJ3Estrogen receptor/0.452
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.452
3h3t16HCollagen type IV alpha-3-binding protein/0.452
4iw8KN3Estrogen receptor/0.452
4j6bPLOCytochrome P450 monooxygenase/0.452
4p6xHCYGlucocorticoid receptor/0.452
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.451
2drcMTXDihydrofolate reductase1.5.1.30.451
3iw1ASDSteroid C26-monooxygenase1.14.13.1410.451
3l0lHC3Nuclear receptor ROR-gamma/0.451
3lfcZ86Mitogen-activated protein kinase 14/0.451
3lu7IPXSerum albumin/0.451
4bgePYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.451
4dquNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.451
4ib4ERM5-hydroxytryptamine receptor 2B/0.451
1rx6DDFDihydrofolate reductase1.5.1.30.450
2hw2RFPRifampin ADP-ribosyl transferase/0.450
2ovmAS0Progesterone receptor/0.450
3invC50Bifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.450
3q0gBCOProbable enoyl-CoA hydratase echA84.2.1.170.450
4z63ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.450
1q5dEPBEpothilone C/D epoxidase1.140.449
2h55DZ8Heat shock protein HSP 90-alpha/0.449
2idzZIDEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.449
3owaFADAcyl-CoA dehydrogenase/0.449
3th8TH9Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.449
3tk3CPZCytochrome P450 2B41.14.14.10.449
4gg70J8Hepatocyte growth factor receptor2.7.10.10.449
4nh82LCHeat shock protein HSP 90-alpha/0.449
3uzcT4EAdenosine receptor A2a/0.449
1bvrNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.448
1drbMTXDihydrofolate reductase1.5.1.30.448
1fmlRTLRetinol dehydratase/0.448
1ia3TQ5Dihydrofolate reductase1.5.1.30.448
1knuYPAPeroxisome proliferator-activated receptor gamma/0.448
1phgMYTCamphor 5-monooxygenase1.14.15.10.448
1uzwCDHIsopenicillin N synthase1.21.3.10.448
2hwrDRDPeroxisome proliferator-activated receptor gamma/0.448
2pupADPMethylthioribose kinase2.7.1.1000.448
3sgv2BJDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.448
4r20AERCytochrome P450 family 17 polypeptide 2/0.448
1fduESTEstradiol 17-beta-dehydrogenase 11.1.1.620.447
1iwjCAMCamphor 5-monooxygenase1.14.15.10.447
1nooCAHCamphor 5-monooxygenase1.14.15.10.447
2po7CHDFerrochelatase, mitochondrial4.99.1.10.447
2w0bCMWLanosterol 14-alpha demethylase1.14.13.700.447
2ydoADNAdenosine receptor A2a/0.447
3s3vTOPDihydrofolate reductase1.5.1.30.447
3vt8YI3Vitamin D3 receptor/0.447
4j03FVSBifunctional epoxide hydrolase 23.1.3.760.447
4l4cCAMCamphor 5-monooxygenase1.14.15.10.447
4uyf73BBromodomain-containing protein 2/0.447
3reyXACAdenosine receptor A2a/0.447
1x8lOXRRetinol dehydratase/0.446
2iviACWIsopenicillin N synthase1.21.3.10.446
2opsHBQGag-Pol polyprotein2.7.7.490.446
2z97CAMCamphor 5-monooxygenase1.14.15.10.446
3d75NBBPheromone-binding protein ASP1/0.446
3w1wCHDFerrochelatase, mitochondrial4.99.1.10.446
3zoiM2WIsopenicillin N synthase1.21.3.10.446
4a2jAS0Progesterone receptor/0.446
4acg6LQGlycogen synthase kinase-3 beta2.7.11.260.446
4ap1NAPSteroid monooxygenase/0.446
4iae1DXAlr2278 protein/0.446
4j6cSTRCytochrome P450 monooxygenase/0.446
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.446
4wa9AXITyrosine-protein kinase ABL12.7.10.20.446
1uy8PU5Heat shock protein HSP 90-alpha/0.445
2nv6ZIDEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.445
2pirDHTAndrogen receptor/0.445
2x7hPFNProstaglandin reductase 310.445
2xc3RT8Steroid C26-monooxygenase1.14.13.1410.445
2y60M8FIsopenicillin N synthase1.21.3.10.445
3ar4TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.445
3c1tMYCDihydroflavonol 4-reductase1.1.1.2190.445
3iro2CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.445
4nb6444Nuclear receptor ROR-gamma/0.445
5ab6CAANonspecific lipid-transfer protein, putative/0.445
1dz8CAMCamphor 5-monooxygenase1.14.15.10.444
2vcmM11Isopenicillin N synthase1.21.3.10.444
2ykcYKCHeat shock protein HSP 90-alpha/0.444
3dxjNE6DNA-directed RNA polymerase subunit beta/0.444
3dxjNE6DNA-directed RNA polymerase subunit beta'/0.444
3mdvCL6Cholesterol 24-hydroxylase/0.444
3own3OWRenin3.4.23.150.444
4eiqKCTPutative FAD-monooxygenase/0.444
4iui1GQEstrogen receptor/0.444
5dt3ATPAurora kinase A2.7.11.10.444
1g63FMNEpidermin decarboxylase4.1.10.443
1jioDEB6-deoxyerythronolide B hydroxylase/0.443
1mp0NADAlcohol dehydrogenase class-31.1.1.10.443
1ndeMONEstrogen receptor beta/0.443
1nhz486Glucocorticoid receptor/0.443
1zeoC01Peroxisome proliferator-activated receptor gamma/0.443
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.443
2cppCAMCamphor 5-monooxygenase1.14.15.10.443
2hm9TRRDihydrofolate reductase1.5.1.30.443
2hrcCHDFerrochelatase, mitochondrial4.99.1.10.443
2nnhREACytochrome P450 2C8/0.443
2qhyMZ1Gag-Pol polyprotein/0.443
3oeyNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.443
4acc7YGGlycogen synthase kinase-3 beta2.7.11.260.443
4zjuNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.443
5akk1P8Bifunctional epoxide hydrolase 23.1.3.760.443
5cp4CAMCamphor 5-monooxygenase1.14.15.10.443
5drdATPAurora kinase A2.7.11.10.443
4z34ON7Lysophosphatidic acid receptor 1/0.443
1dz6CAMCamphor 5-monooxygenase1.14.15.10.442
1nzyBCA4-chlorobenzoyl coenzyme A dehalogenase3.8.1.70.442
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.442
2ourCMPcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.442
3f7z34OGlycogen synthase kinase-3 beta2.7.11.260.442
3h3sH15Collagen type IV alpha-3-binding protein/0.442
3oewNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
3sz0FADSulfide-quinone reductase/0.442
3t14FADSulfide-quinone reductase/0.442
3tjsD0RCytochrome P450 3A4/0.442
4d7eFADPutative lysine-N-oxygenase/0.442
4o1mNADEnoyl-acyl carrier reductase/0.442
1blzACVIsopenicillin N synthase1.21.3.10.441
1dxoFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.441
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.441
1pl2ABYGlutathione S-transferase A12.5.1.180.441
1qknRALEstrogen receptor beta/0.441
3c0g3AMPeripheral plasma membrane protein CASK2.7.11.10.441
3eej53RUncharacterized protein/0.441
4c9pCAMCytochrome P450/0.441
4hee14RPeroxisome proliferator-activated receptor gamma/0.441
4jlj1NMDeoxycytidine kinase2.7.1.740.441
4tuvCPZCytochrome P450 1191.140.441
1kzjCB3Thymidylate synthase/0.440
1p93DEXGlucocorticoid receptor/0.440
2bu9HFVIsopenicillin N synthase1.21.3.10.440
2fzhDH1Dihydrofolate reductase1.5.1.30.440
2q70DC8Estrogen receptor/0.440
2yyiFAD4-hydroxyphenylacetate 3-monooxygenase oxygenase component1.14.14.90.440
3drcMTXDihydrofolate reductase1.5.1.30.440
3ih0ANPUncharacterized sugar kinase PH14592.7.10.440
3kjsDQ1Bifunctional dihydrofolate reductase-thymidylate synthase/0.440
3tmz06XCytochrome P450 2B41.14.14.10.440
3v9v21LPeroxisome proliferator-activated receptor gamma/0.440
3wv9FEGHmd co-occurring protein HcgE/0.440
3zk5Z18Cytochrome P450 monooxygenase PikC/0.440
4b14NHWGlycylpeptide N-tetradecanoyltransferase/0.440
4i8vBHFCytochrome P450 1A11.14.14.10.440
4kkyCAMCamphor 5-monooxygenase1.14.15.10.440
4o71CPBBromodomain-containing protein 4/0.440
3rfmCFFAdenosine receptor A2a/0.440