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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
1r6aSAHGenome polyprotein2.7.7.48

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1r6aSAHGenome polyprotein2.7.7.481.000
2p1dSAHGenome polyprotein2.7.7.480.653
2p3qSAHGenome polyprotein/0.608
1l9kSAHGenome polyprotein2.7.7.480.598
3p8zSAHGenome polyprotein2.1.1.560.585
4k6mSAHGenome polyprotein/0.559
2pxaSAHGenome polyprotein2.7.7.480.558
2oxtSAMGenome polyprotein/0.548
4ctjSAMGenome polyprotein/0.544
3eluSAMMethyltransferase/0.536
3eldSFGMethyltransferase/0.531
2px2SAHGenome polyprotein2.7.7.480.528
3evcSAHGenome polyprotein2.1.1.560.517
2p41SAHGenome polyprotein/0.513
3p97SAMGenome polyprotein2.1.1.560.513
1ykdCMPAdenylate cyclase/0.502
3evaSAHGenome polyprotein2.1.1.560.502
3elySAHMethyltransferase/0.501
5cuqNSCGenome polyprotein/0.496
4e37NDPCatalase1.11.1.60.495
3evbSAHGenome polyprotein2.1.1.560.488
5jjrSAHGenome polyprotein/0.488
2xvv9DNSerum albumin/0.483
2xbmSAHGenome polyprotein/0.482
2x1nX1NCyclin-dependent kinase 22.7.11.220.479
4l8u9AZSerum albumin/0.479
2px5SAHGenome polyprotein2.7.7.480.478
1pl8NADSorbitol dehydrogenase1.1.1.140.477
1qxlFR8Adenosine deaminase3.5.4.40.476
1hb1OCVIsopenicillin N synthase1.21.3.10.475
5dtoSAHGenome polyprotein/0.475
1m78NDPDihydrofolate reductase1.5.1.30.473
2yx6ADPUncharacterized protein/0.473
3zkuHCVIsopenicillin N synthase1.21.3.10.471
1jtuLYBThymidylate synthase/0.469
2xviFADPutative flavin-containing monooxygenase/0.469
4dpdDHFBifunctional dihydrofolate reductase-thymidylate synthase/0.469
2w6nOA2Biotin carboxylase6.3.4.140.468
3c3dFO12-phospho-L-lactate transferase/0.468
3gwfNAPCyclohexanone monooxygenase/0.468
4dtiNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.468
5uviZMAAdenosine receptor A2a/0.468
2x7gPVBSRSF protein kinase 22.7.11.10.466
1jtqLY3Thymidylate synthase/0.465
1opbRETRetinol-binding protein 2/0.465
2h2qNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.465
3w0hW12Vitamin D3 receptor/0.465
1axwMTXThymidylate synthase/0.464
2xvw9NRSerum albumin/0.464
4rlh0WEEnoyl-[acyl-carrier-protein] reductase [NADH]/0.464
3p8z36AGenome polyprotein2.1.1.560.463
3zkyWT4Isopenicillin N synthase1.21.3.10.463
1wbpADPSRSF protein kinase 12.7.11.10.462
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.461
3oafOAGDihydrofolate reductase1.5.1.30.461
3vt3VDXVitamin D3 receptor/0.461
4lt63ATPoly(A) polymerase gamma2.7.7.190.461
4z64ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.461
5jjsSAHGenome polyprotein/0.461
1hb3SCVIsopenicillin N synthase1.21.3.10.460
1w06W05Isopenicillin N synthase1.21.3.10.460
2hasC3OVitamin D3 receptor/0.460
2w71L23Biotin carboxylase6.3.4.140.460
3lanKBTGag-Pol polyprotein2.7.7.490.460
4g1z0VPVitamin D3 receptor A/0.460
4hxn1A7Bromodomain-containing protein 4/0.460
2ydwWSHBromodomain-containing protein 2/0.459
3vrwYS5Vitamin D3 receptor/0.459
3w0iO11Vitamin D3 receptor/0.459
4hxs1A3Bromodomain-containing protein 4/0.459
4iteTEYVitamin D3 receptor/0.459
1ai9NDPDihydrofolate reductase1.5.1.30.458
1l2jETCEstrogen receptor beta/0.458
3eej53RUncharacterized protein/0.458
3qlrNDPDihydrofolate reductase1.5.1.30.458
3ue4DB8Tyrosine-protein kinase ABL12.7.10.20.458
4iarERM5-hydroxytryptamine receptor 1B/0.458
4wh2ADPN-acetylhexosamine 1-kinase2.7.1.1620.458
2idzZIDEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.457
3zoiM2WIsopenicillin N synthase1.21.3.10.457
4j0s1H3Bromodomain-containing protein 4/0.457
1tlcF89Thymidylate synthase/0.456
1zidZIDEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.456
2b9wFADPutative aminooxidase/0.456
2mm3CHOGastrotropin/0.456
4a31MYAGlycylpeptide N-tetradecanoyltransferase/0.456
4ej1FOLDihydrofolate reductase1.5.1.30.456
4lr61XABromodomain-containing protein 4/0.456
1ndzFR5Adenosine deaminase3.5.4.40.455
1rdtL79Retinoic acid receptor RXR-alpha/0.455
1uy9PU6Heat shock protein HSP 90-alpha/0.455
1vyrFMNPentaerythritol tetranitrate reductase/0.455
1yinCM3Estrogen receptor/0.455
2azyCHDPhospholipase A2, major isoenzyme3.1.1.40.455
2g37FADProline dehydrogenase/0.455
2zb45OPProstaglandin reductase 21.3.1.480.455
3p74FMNPentaerythritol tetranitrate reductase/0.455
3vt7VDXVitamin D3 receptor/0.455
4gk3L87Ephrin type-A receptor 32.7.10.10.455
1nzdUPGDNA beta-glucosyltransferase/0.454
2bl4NADLactaldehyde reductase1.1.1.770.454
3vrvYSDVitamin D3 receptor/0.454
3zsh469Mitogen-activated protein kinase 14/0.454
4dp3MMVBifunctional dihydrofolate reductase-thymidylate synthase/0.454
4ia3BIVVitamin D3 receptor A/0.454
4l455FIRibosomal protein S6 kinase beta-12.7.11.10.454
5cvhADPCasein kinase II subunit alpha2.7.11.10.454
1qyxASDEstradiol 17-beta-dehydrogenase 11.1.1.620.453
2aq8NAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.453
2hc4VDXVitamin D3 receptor A/0.453
2qhxFE1Pteridine reductase 11.5.1.330.453
3qly55VUncharacterized protein/0.453
4h9506UDihydrofolate reductase1.5.1.30.453
1bk0ACVIsopenicillin N synthase1.21.3.10.452
2vf0F89Thymidylate synthase/0.452
2vwy7X5Ephrin type-B receptor 42.7.10.10.452
2ydvNECAdenosine receptor A2a/0.452
3nrrD16Bifunctional dihydrofolate reductase-thymidylate synthase/0.452
3oqfS51Renin3.4.23.150.452
3vt9YI4Vitamin D3 receptor/0.452
4hgl0YOCasein kinase I isoform gamma-32.7.11.10.452
1dz6CAMCamphor 5-monooxygenase1.14.15.10.451
1fmlRTLRetinol dehydratase/0.451
1rx7FOLDihydrofolate reductase1.5.1.30.451
2byi2DDHeat shock protein HSP 90-alpha/0.451
2hmaSAMtRNA-specific 2-thiouridylase MnmA/0.451
2y5s78HDihydropteroate synthase/0.451
2zjwREFCasein kinase II subunit alpha2.7.11.10.451
3c6tM14Gag-Pol polyprotein2.7.7.490.451
3ns2PYVAbscisic acid receptor PYL2/0.451
4c67L5SBromodomain-containing protein 4/0.451
4nmbFADBifunctional protein PutA/0.451
1fwmCB3Thymidylate synthase/0.450
1j3iWRABifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.450
1og5SWFCytochrome P450 2C9/0.450
1s19MC9Vitamin D3 receptor/0.450
1uuoBRFDihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.450
1zprCB3Thymidylate synthase/0.450
2kceD16Thymidylate synthase/0.450
2w3wVG9Dihydrofolate reductase/0.450
3q9xEMOCasein kinase II subunit alpha2.7.11.10.450
4iui1GQEstrogen receptor/0.450
4o95245Cytokinin dehydrogenase 4/0.450
4q0a4OAVitamin D3 receptor A/0.450
1bq1CB3Thymidylate synthase/0.449
1m17AQ4Epidermal growth factor receptor2.7.10.10.449
1s64778Geranylgeranyl transferase type-1 subunit beta2.5.1.590.449
2iviACWIsopenicillin N synthase1.21.3.10.449
2o1xTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.449
2wotZZGTGF-beta receptor type-12.7.11.300.449
3byzH11Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.449
3vtcTK3Vitamin D3 receptor/0.449
1e26GPBDihydrofolate reductase1.5.1.30.448
1ia1NDPDihydrofolate reductase1.5.1.30.448
1xj7DHTAndrogen receptor/0.448
1yqj6NPMitogen-activated protein kinase 14/0.448
2aqkNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.448
2ban357Gag-Pol polyprotein2.7.7.490.448
2cd2FOLDihydrofolate reductase1.5.1.30.448
2o1sTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.448
3dhcCYKN-acyl homoserine lactonase AiiA3.1.1.810.448
3ijdC2FMethylenetetrahydrofolate reductase/0.448
3zhrTPPMultifunctional 2-oxoglutarate metabolism enzyme1.2.4.20.448
4qa0SHHHistone deacetylase 83.5.1.980.448
4y8wSTRSteroid 21-hydroxylase/0.448
1bwsNDPGDP-L-fucose synthase/0.447
1tkzH16Gag-Pol polyprotein2.7.7.490.447
2acwUPGGlycosyltransferase/0.447
3c0i3AMPeripheral plasma membrane protein CASK2.7.11.10.447
3d75NBBPheromone-binding protein ASP1/0.447
3v49PK0Androgen receptor/0.447
4b10NHWGlycylpeptide N-tetradecanoyltransferase/0.447
4ia7BIVVitamin D3 receptor A/0.447
4mq12C3Dual specificity tyrosine-phosphorylation-regulated kinase 1A2.7.12.10.447
4z1fH71Heat shock protein 75 kDa, mitochondrial/0.447
5h8tRTLRetinol-binding protein 1/0.447
1brpRTLRetinol-binding protein 4/0.446
2azzTCHPhospholipase A2, major isoenzyme3.1.1.40.446
2chx090Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.446
2itnANPEpidermal growth factor receptor2.7.10.10.446
3cgcCOACoenzyme A disulfide reductase/0.446
3nga3NGCasein kinase II subunit alpha2.7.11.10.446
3v8t477Tyrosine-protein kinase ITK/TSK2.7.10.20.446
4g1y0VOVitamin D3 receptor A/0.446
4ib4ERM5-hydroxytryptamine receptor 2B/0.446
4icyFADPgaE/0.446
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.446
4lsmNADGlyceraldehyde-3-phosphate dehydrogenase/0.446
4nks2M2Fibroblast growth factor receptor 1/0.446
4pk4ADPUnconventional myosin-VI/0.446
4twnB96Ephrin type-A receptor 32.7.10.10.446
5d1bTSNHistone deacetylase 83.5.1.980.446
1qjfACSIsopenicillin N synthase1.21.3.10.445
1txiTX5Vitamin D3 receptor/0.445
2hamC33Vitamin D3 receptor/0.445
2hy81STSerine/threonine-protein kinase PAK 12.7.11.10.445
2i40BLZCyclin-dependent kinase 22.7.11.220.445
2oc4IMHPurine nucleoside phosphorylase2.4.2.10.445
2y60M8FIsopenicillin N synthase1.21.3.10.445
3at4CCKCasein kinase II subunit alpha2.7.11.10.445
3cgdCOACoenzyme A disulfide reductase/0.445
3mdmFJZCholesterol 24-hydroxylase/0.445
3ml8ML8Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.445
3otqMZLBifunctional epoxide hydrolase 23.3.2.100.445
3qlzQLZUncharacterized protein/0.445
3vtdTKDVitamin D3 receptor/0.445
3zvuA8SAbscisic acid receptor PYR1/0.445
4ap1NAPSteroid monooxygenase/0.445
4ctkSAMGenome polyprotein/0.445
4e730NRMitogen-activated protein kinase 82.7.11.240.445
4eo80S3Genome polyprotein2.7.7.480.445
4hwkSFYSepiapterin reductase1.1.1.1530.445
4mv4ACPBiotin carboxylase6.3.4.140.445
4rtbSAMPutative thiazole biosynthesis protein ThiH/0.445
4rw6494Gag-Pol polyprotein2.7.7.490.445
1a27ESTEstradiol 17-beta-dehydrogenase 11.1.1.620.444
1ao8MTXDihydrofolate reductase1.5.1.30.444
1bwkFMNNADPH dehydrogenase 11.6.99.10.444
1fmjRTLRetinol dehydratase/0.444
1h1r6CPCyclin-dependent kinase 22.7.11.220.444
1uykPUXHeat shock protein HSP 90-alpha/0.444
2pwlACPFibroblast growth factor receptor 2/0.444
2vbpVB1Isopenicillin N synthase1.21.3.10.444
2vx17X8Ephrin type-B receptor 42.7.10.10.444
2wgjVGHHepatocyte growth factor receptor2.7.10.10.444
3b9lAZZSerum albumin/0.444
3d7tSTUTyrosine-protein kinase CSK/0.444
3dolGWIPol protein/0.444
4dfrMTXDihydrofolate reductase1.5.1.30.444
4grb0XGCasein kinase II subunit alpha2.7.11.10.444
4o7uTHFThymidylate synthase/0.444
4rbs0RVMetallo-beta-lactamase type 2/0.444
4wdb2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.444
5cshATPCasein kinase II subunit alpha2.7.11.10.444
1cdeGARPhosphoribosylglycinamide formyltransferase/0.443
1j7kATPHolliday junction ATP-dependent DNA helicase RuvB/0.443
1kceCB3Thymidylate synthase/0.443
1lsoNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.443
1m79MQ1Dihydrofolate reductase1.5.1.30.443
1oiyN41Cyclin-dependent kinase 22.7.11.220.443
2abbFMNPentaerythritol tetranitrate reductase/0.443
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.443
2wo7ASVIsopenicillin N synthase1.21.3.10.443
3fwiCAMCamphor 5-monooxygenase1.14.15.10.443
3i0rRT3Gag-Pol polyprotein2.7.7.490.443
3lu8IQXSerum albumin/0.443
3p3zP3ZPutative cytochrome P450/0.443
4bb3KKAIsopenicillin N synthase1.21.3.10.443
4bw39BMBromodomain-containing protein 4/0.443
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.443
4h8aNAIUreidoglycolate dehydrogenase (NAD(+))1.1.1.3500.443
4v12POGMaoC like domain protein/0.443
4y9lFADAcyl-CoA dehydrogenase family member 11/0.443
1jpaANPEphrin type-B receptor 22.7.10.10.442
1kzjCB3Thymidylate synthase/0.442
1rjkVDZVitamin D3 receptor/0.442
1rkhVD2Vitamin D3 receptor/0.442
1uy8PU5Heat shock protein HSP 90-alpha/0.442
2cppCAMCamphor 5-monooxygenase1.14.15.10.442
2jb4A14Isopenicillin N synthase1.21.3.10.442
2nv6ZIDEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
2on6IMHPurine nucleoside phosphorylase2.4.2.10.442
2ovhAS0Progesterone receptor/0.442
2pvyACPFibroblast growth factor receptor 2/0.442
3bejMUFBile acid receptor/0.442
3cseN22Uncharacterized protein/0.442
3eem53VUncharacterized protein/0.442
3qqlX03Cyclin-dependent kinase 22.7.11.220.442
3vt8YI3Vitamin D3 receptor/0.442
4a2zVIQGlycylpeptide N-tetradecanoyltransferase/0.442
4mv1ADPBiotin carboxylase6.3.4.140.442
4u97STUInterleukin-1 receptor-associated kinase 42.7.11.10.442
5dhhDGWNociceptin receptor/0.442
1cqp803Integrin alpha-L/0.441
1lhvNOGSex hormone-binding globulin/0.441
1rt2TNKGag-Pol polyprotein2.7.7.490.441
1v0oINRCell division control protein 2 homolog2.7.11.220.441
2bakAQZMitogen-activated protein kinase 14/0.441
2hk51BMTyrosine-protein kinase HCK2.7.10.20.441
2rtoIMIStreptavidin/0.441
2v4lABJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
2z97CAMCamphor 5-monooxygenase1.14.15.10.441
3a783EVVitamin D3 receptor/0.441
3amfFMNFMN-binding protein/0.441
3dmjGWEPol protein/0.441
3dogNNNCyclin-dependent kinase 22.7.11.220.441
3fr8NDPKetol-acid reductoisomerase, chloroplastic1.1.1.860.441
3g493G4Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.441
3my5RFZCyclin-dependent kinase 22.7.11.220.441
4a9yAQZMitogen-activated protein kinase 14/0.441
4ead0NPThymidine phosphorylase2.4.2.40.441
4kp61S1cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.441
4l7sG7KTyrosine-protein kinase ITK/TSK2.7.10.20.441
4qzuRTLRetinol-binding protein 2/0.441
4z63ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.441
5iubCLRAdenosine receptor A2a/0.441
1crbRTLRetinol-binding protein 1/0.440
1fdwESTEstradiol 17-beta-dehydrogenase 11.1.1.620.440
1iiuRTLRetinol-binding protein 4/0.440
1oc1ASVIsopenicillin N synthase1.21.3.10.440
1rx1NAPDihydrofolate reductase1.5.1.30.440
1ungALHCyclin-dependent-like kinase 52.7.11.10.440
1uofPNNDeacetoxycephalosporin C synthase1.14.20.10.440
2hb8MVDVitamin D3 receptor/0.440
2izrBRKCasein kinase I isoform gamma-32.7.11.10.440
2v5aLZLBiotin carboxylase6.3.4.140.440
3hub469Mitogen-activated protein kinase 14/0.440
3iqfE4MF420-dependent methylenetetrahydromethanopterin dehydrogenase1.5.98.10.440
3nr4PYVAbscisic acid receptor PYL2/0.440
3vruYS3Vitamin D3 receptor/0.440
3wv9FEGHmd co-occurring protein HcgE/0.440
4g2fC07Ephrin type-A receptor 32.7.10.10.440
4iae1DXAlr2278 protein/0.440
4wqmFADToluene-4-monooxygenase electron transfer component1.18.1.30.440