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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
1zw9H64ATP-dependent molecular chaperone HSP82

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1zw9H64ATP-dependent molecular chaperone HSP82/1.000
1uyePU9Heat shock protein HSP 90-alpha/0.582
1uydPU8Heat shock protein HSP 90-alpha/0.571
1uymPU3Heat shock protein HSP 90-beta/0.571
1uy8PU5Heat shock protein HSP 90-alpha/0.570
3inxJZCHeat shock protein HSP 90-alpha/0.570
3o6o94MHeat shock protein 83/0.560
4nh82LCHeat shock protein HSP 90-alpha/0.558
3ft8MOJHeat shock protein HSP 90-alpha/0.557
2ykeYKEHeat shock protein HSP 90-alpha/0.555
2ykjYKJHeat shock protein HSP 90-alpha/0.554
2qg2A91Heat shock protein HSP 90-alpha/0.553
4eftEFTHeat shock protein HSP 90-alpha/0.552
3inwJZBHeat shock protein HSP 90-alpha/0.547
1uy7PU4Heat shock protein HSP 90-alpha/0.541
2fwzH71Heat shock protein HSP 90-alpha/0.541
3mnrSD1Heat shock protein HSP 90-alpha/0.539
1uyfPU1Heat shock protein HSP 90-alpha/0.538
3o0iP54Heat shock protein HSP 90-alpha/0.537
2ykiYKIHeat shock protein HSP 90-alpha/0.535
1uykPUXHeat shock protein HSP 90-alpha/0.534
1uy9PU6Heat shock protein HSP 90-alpha/0.531
2ykbYKBHeat shock protein HSP 90-alpha/0.531
4bqg50QHeat shock protein HSP 90-alpha/0.531
4awq592Heat shock protein HSP 90-alpha/0.530
2h55DZ8Heat shock protein HSP 90-alpha/0.529
3qdd94MHeat shock protein HSP 90-alpha/0.527
4awo99BHeat shock protein HSP 90-alpha/0.527
2fwyH64Heat shock protein HSP 90-alpha/0.524
2ykcYKCHeat shock protein HSP 90-alpha/0.524
4awp99AHeat shock protein HSP 90-alpha/0.522
1uycPU7Heat shock protein HSP 90-alpha/0.521
3hz5Z64Heat shock protein HSP 90-alpha/0.520
1uyiPUZHeat shock protein HSP 90-alpha/0.519
4efuEFUHeat shock protein HSP 90-alpha/0.519
3tdaPN0Cytochrome P450 2D6/0.516
1uyhPU0Heat shock protein HSP 90-alpha/0.507
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.505
1uy6PU3Heat shock protein HSP 90-alpha/0.500
3qm4PN0Cytochrome P450 2D6/0.500
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.494
3d0bSNXHeat shock protein HSP 90-alpha/0.492
2wi4ZZ4Heat shock protein HSP 90-alpha/0.489
1fxsNAPGDP-L-fucose synthase/0.488
3gwfFADCyclohexanone monooxygenase/0.488
4xnw2IDP2Y purinoceptor 1/0.486
4z1fH71Heat shock protein 75 kDa, mitochondrial/0.485
4g3jVNTLanosterol 14-alpha-demethylase/0.484
4uugPXGBranched-chain amino acid aminotransferase, putative/0.484
1o8cNDPProbable acrylyl-CoA reductase AcuI1.3.1.840.480
1rx0FADIsobutyryl-CoA dehydrogenase, mitochondrial1.3.990.480
2yk2YJXHeat shock protein HSP 90-alpha/0.480
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.480
2wi72KLHeat shock protein HSP 90-alpha/0.479
4hy6FJ1Heat shock protein HSP 90-alpha/0.479
3hz137DHeat shock protein HSP 90-alpha/0.478
3bg7FADPyranose 2-oxidase/0.477
1fmlRTLRetinol dehydratase/0.475
5dqrFAD7-hydroxymethyl chlorophyll a reductase, chloroplastic1.17.7.20.475
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.473
2fm5M99cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.472
4j03FVSBifunctional epoxide hydrolase 23.1.3.760.471
1qbgFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.470
2xx513NATP-dependent molecular chaperone HSP82/0.470
1c7oPPGHemolysin/0.468
2zd1T27Gag-Pol polyprotein2.7.7.490.468
3k4nFADPyranose 2-oxidase/0.467
4jlj1NMDeoxycytidine kinase2.7.1.740.467
5hwoHMGHydroxymethylglutaryl-CoA synthase/0.467
1gufNDPEnoyl-[acyl-carrier-protein] reductase 1, mitochondrial1.3.1.100.466
1icqOPD12-oxophytodienoate reductase 11.3.1.420.466
1q20PLOSulfotransferase family cytosolic 2B member 12.8.2.20.466
3jyqNADQuinate/shikimate dehydrogenase (NAD(+))/0.466
3l0lHC3Nuclear receptor ROR-gamma/0.466
3sni546cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.466
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.466
2p5uNADUDP-glucose 4-epimerase/0.465
2ym2NAPPhenylacetone monooxygenase1.14.13.920.465
5dp2NAPCurF/0.465
3vt5YI2Vitamin D3 receptor/0.464
1z6tADPApoptotic protease-activating factor 1/0.463
3vtbTKAVitamin D3 receptor/0.463
4nv10FXFormyl transferase/0.463
1y0s331Peroxisome proliferator-activated receptor delta/0.462
3a1l2CCCytochrome P450/0.462
3bgxMEFThymidylate synthase/0.462
3vt3VDXVitamin D3 receptor/0.462
1d3pBT3Prothrombin3.4.21.50.461
2pg0FADAcyl-CoA dehydrogenase/0.461
4yaoFMNNADPH--cytochrome P450 reductase/0.461
5d7q4I5NAD-dependent protein deacetylase sirtuin-23.5.10.461
2xytTC9Soluble acetylcholine receptor/0.460
4ku5DCC3-oxoacyl-[ACP] synthase III/0.460
1c1c612Gag-Pol polyprotein2.7.7.490.459
4a322CDGlycylpeptide N-tetradecanoyltransferase/0.459
1rb2FOLDihydrofolate reductase1.5.1.30.458
3q43D66M1 family aminopeptidase3.4.110.458
3v94WYQPhosphodiesterase/0.458
4gevCB3Thymidylate synthase/0.458
1diuBDMDihydrofolate reductase1.5.1.30.457
1knrFADL-aspartate oxidase1.4.3.160.457
1rf7DHFDihydrofolate reductase1.5.1.30.457
3a783EVVitamin D3 receptor/0.457
3uzwNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.457
5k2cZMAAdenosine receptor A2a/0.457
1fmjRTLRetinol dehydratase/0.456
1ta6177Prothrombin3.4.21.50.456
2pksG44Prothrombin3.4.21.50.456
3q5kD1UHeat shock protein 83-1/0.456
4biiPYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.456
1q3gUDAUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.455
2g263LGRenin3.4.23.150.455
2q59240Peroxisome proliferator-activated receptor gamma/0.455
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.455
4g1qT27Gag-Pol polyprotein2.7.7.490.455
4q71FADBifunctional protein PutA/0.455
4ryvZEAProtein LlR18A/0.455
5hwqCAAHydroxymethylglutaryl-CoA synthase/0.455
1d3dBZTProthrombin3.4.21.50.453
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.453
1e7qNAPGDP-L-fucose synthase/0.453
1synF89Thymidylate synthase/0.453
1zzuDP1Nitric oxide synthase, brain1.14.13.390.453
3g70A5TRenin3.4.23.150.453
3nx4NAPPutative oxidoreductase/0.453
3rlr3RRHeat shock protein HSP 90-alpha/0.453
3sn7540cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.453
3zbrNAP2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.453
4uymVOR14-alpha sterol demethylase Cyp51B/0.453
1txtCAAHMG-CoA synthase/0.452
1uhoVDNcGMP-specific 3',5'-cyclic phosphodiesterase/0.452
2ftoCB3Thymidylate synthase/0.452
3jypNADQuinate/shikimate dehydrogenase (NAD(+))/0.452
4i2pG73Gag-Pol polyprotein2.7.7.490.452
4id5T27Gag-Pol polyprotein2.7.7.490.452
4jjiNADAlcohol dehydrogenase class-3/0.452
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.451
1ddrMTXDihydrofolate reductase1.5.1.30.450
1jomFFODihydrofolate reductase1.5.1.30.450
1xomCIOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.450
1y60H4M5,6,7,8-tetrahydromethanopterin hydro-lyase4.2.1.1470.450
2eixFADNADH-cytochrome b5 reductase/0.450
2gs9SAHUncharacterized protein/0.450
2z3uCRRCytochrome P450/0.450
3fapARDPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.450
3fapARDSerine/threonine-protein kinase mTOR2.7.11.10.450
3v0o4GWHisto-blood group ABO system transferase/0.450
4l8u9AZSerum albumin/0.450
2bgjFADNADPH:ferredoxin reductase/0.449
2ivnANPtRNA N6-adenosine threonylcarbamoyltransferase/0.449
3c3xNAPEugenol synthase 11.1.1.3180.449
4dquNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.449
4nv14TGFormyl transferase/0.449
1cf3FADGlucose oxidase1.1.3.40.448
1jnzFADAdenylylsulfate reductase, subunit A (AprA)/0.448
2gqpPA7Endoplasmin/0.448
2h6iCYS_VAL_LEU_SER_GERProtein farnesyltransferase subunit beta2.5.1.580.448
3g5sFADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO/0.448
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.448
3sgtP09Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)/0.448
3vg9ZMAAdenosine receptor A2a/0.448
3w78CBDFMN-dependent NADH-azoreductase/0.448
4bc7FADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.448
4bcrWY1Peroxisome proliferator-activated receptor alpha/0.448
4g1d0VKVitamin D3 receptor A/0.448
4tuvCPZCytochrome P450 1191.140.448
1dyjDDFDihydrofolate reductase1.5.1.30.447
1pd9CO4Dihydrofolate reductase1.5.1.30.447
3ebf332Nitric oxide synthase, inducible1.14.13.390.447
3fktSIIBeta-secretase 13.4.23.460.447
4ifvT27Gag-Pol polyprotein2.7.7.490.447
1jioDEB6-deoxyerythronolide B hydroxylase/0.446
1pqc444Oxysterols receptor LXR-beta/0.446
2ignFADPyranose 2-oxidase/0.446
2iqgF2IBeta-secretase 13.4.23.460.446
2o1sTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.446
3fznD7KBenzoylformate decarboxylase4.1.1.70.446
3och2MXDihydrofolate reductase1.5.1.30.446
3vt7VDXVitamin D3 receptor/0.446
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.446
4bb6HD1Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.446
4ug5XFKNitric oxide synthase oxygenase1.14.13.1650.446
2hekGDPUncharacterized protein/0.445
2hizLIJBeta-secretase 13.4.23.460.445
2ivpATPtRNA N6-adenosine threonylcarbamoyltransferase/0.445
3ohh3HHBeta-secretase 13.4.23.460.445
3r4pFU7Heat shock protein HSP 90-alpha/0.445
3vtdTKDVitamin D3 receptor/0.445
3w0iO11Vitamin D3 receptor/0.445
4b5pACOAlpha-tubulin N-acetyltransferase 1/0.445
4bfvZVVPantothenate kinase2.7.1.330.445
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.445
4ia3BIVVitamin D3 receptor A/0.445
4iteTEYVitamin D3 receptor/0.445
4n3l2FNProthrombin3.4.21.50.445
1oc1ASVIsopenicillin N synthase1.21.3.10.444
1xm1GAHProthrombin3.4.21.50.444
2iviACWIsopenicillin N synthase1.21.3.10.444
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.444
3b70NAPEnoyl reductase LovC10.444
3bgrT27Gag-Pol polyprotein2.7.7.490.444
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
3w5rLOAVitamin D3 receptor/0.444
4ej1FOLDihydrofolate reductase1.5.1.30.444
4isk1JYThymidylate synthase/0.444
4tm3FADKtzI/0.444
1q0rAKTAclacinomycin methylesterase RdmC3.1.1.950.443
1zdwFLVPrenyltransferase/0.443
2igoFADPyranose 2-oxidase/0.443
3drcMTXDihydrofolate reductase1.5.1.30.443
3gc9B45Mitogen-activated protein kinase 112.7.11.240.443
3tx1FADUDP-N-acetylenolpyruvoylglucosamine reductase/0.443
4ead0NPThymidine phosphorylase2.4.2.40.443
4irnFADAnaB/0.443
4lxjLANLanosterol 14-alpha demethylase1.14.13.700.443
1db1VDXVitamin D3 receptor/0.442
1ddsMTXDihydrofolate reductase1.5.1.30.442
1g63FMNEpidermin decarboxylase4.1.10.442
1ie8KH1Vitamin D3 receptor/0.442
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.442
1kzjCB3Thymidylate synthase/0.442
1rkhVD2Vitamin D3 receptor/0.442
1tdrMTXDihydrofolate reductase1.5.1.30.442
2hamC33Vitamin D3 receptor/0.442
2yjxYJXHeat shock protein HSP 90-alpha/0.442
3m7rVDXVitamin D3 receptor/0.442
3oibFDAPutative acyl-CoA dehydrogenase/0.442
4c2z646Glycylpeptide N-tetradecanoyltransferase 1/0.442
4dfrMTXDihydrofolate reductase1.5.1.30.442
4geb0LDKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.442
4l9kEHFSerum albumin/0.442
4wriOKAOkadaic acid binding protein 2-alpha/0.442
4mqt2CUMuscarinic acetylcholine receptor M2/0.442
1dhiMTXDihydrofolate reductase1.5.1.30.441
1hfqMOTDihydrofolate reductase1.5.1.30.441
1ib0FADNADH-cytochrome b5 reductase 31.6.2.20.441
1s5kCOAAminoglycoside N(6')-acetyltransferase type 1/0.441
2e0nSAHPrecorrin-2 C20-methyltransferase/0.441
2e9aB28Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.441
2ntvP1HEnoyl-[acyl-carrier-protein] reductase [NADH]/0.441
2wufKEM4,5:9,10-diseco-3-hydroxy-5,9,17-trioxoandrosta-1(10),2-diene-4-oate hydrolase3.7.1.170.441
2y6fM9FIsopenicillin N synthase1.21.3.10.441
2zwaSAHtRNA wybutosine-synthesizing protein 42.1.1.2900.441
3dlgGWEGag-Pol polyprotein2.7.7.490.441
3gfbNADL-threonine 3-dehydrogenase/0.441
3gw9VNILanosterol 14-alpha-demethylase/0.441
3q8uADPNucleoside diphosphate kinase/0.441
3r7kFDAProbable acyl CoA dehydrogenase/0.441
3ruhNADUDP-N-acetylglucosamine 4-epimerase/0.441
3vweCOAAlpha-tubulin N-acetyltransferase 1/0.441
4dpwAGSMevalonate diphosphate decarboxylase/0.441
4g7gVFVLanosterol 14-alpha-demethylase/0.441
4ips1G4Mycocyclosin synthase1.14.21.90.441
4jqh1MFAlr2278 protein/0.441
4djhJDCKappa-type opioid receptor/0.441
1blzACVIsopenicillin N synthase1.21.3.10.440
1disBDMDihydrofolate reductase1.5.1.30.440
1w06W05Isopenicillin N synthase1.21.3.10.440
2bdyUNBProthrombin3.4.21.50.440
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.440
2iyaZIOOleandomycin glycosyltransferase/0.440
3cgcCOACoenzyme A disulfide reductase/0.440
3dopNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.440
3rudNADUDP-N-acetylglucosamine 4-epimerase/0.440
3vrwYS5Vitamin D3 receptor/0.440
4anwO92Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.440
4b12C23Glycylpeptide N-tetradecanoyltransferase/0.440
4fh5UTPTerminal uridylyltransferase cid1/0.440
4haiI23Bifunctional epoxide hydrolase 23.1.3.760.440
5fm7ADPRuvB-like helicase/0.440
5i2fBS5Histidine triad nucleotide-binding protein 130.440
5kgpACOPredicted acetyltransferase/0.440