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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
4at2ASDPossible succinate dehydrogenase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
4at2ASDPossible succinate dehydrogenase/1.000
1qxlFR8Adenosine deaminase3.5.4.40.502
2fpcSCGStrictosidine synthase4.3.3.20.497
3irn1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.496
1txiTX5Vitamin D3 receptor/0.487
3w0c6DSVitamin D3 receptor/0.487
2uzbC75Cyclin-dependent kinase 22.7.11.220.486
2vuw5IDSerine/threonine-protein kinase haspin2.7.11.10.485
3kpzZNEVitamin D3 receptor/0.481
1ie9VDXVitamin D3 receptor/0.480
2zbaZBATrichothecene 3-O-acetyltransferase/0.480
4bcoT6QCyclin-dependent kinase 22.7.11.220.480
2x1nX1NCyclin-dependent kinase 22.7.11.220.479
2z7gEH9Adenosine deaminase3.5.4.40.478
2i40BLZCyclin-dependent kinase 22.7.11.220.477
4bcpT3CCyclin-dependent kinase 22.7.11.220.477
1fmjRTLRetinol dehydratase/0.476
3nj0PYVAbscisic acid receptor PYL2/0.476
3ns2PYVAbscisic acid receptor PYL2/0.476
3iw4LW4Protein kinase C alpha type2.7.11.130.474
3u9n09HSerine/threonine-protein kinase Chk12.7.11.10.474
4fjz4FJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.474
1aq1STUCyclin-dependent kinase 22.7.11.220.473
4bchT7ZCyclin-dependent kinase 92.7.11.220.473
1ndzFR5Adenosine deaminase3.5.4.40.472
1ie8KH1Vitamin D3 receptor/0.469
1v7aFRCAdenosine deaminase3.5.4.40.469
1j3jCP6Bifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.468
1klkPMDDihydrofolate reductase1.5.1.30.468
2hc4VDXVitamin D3 receptor A/0.466
4bcqTJFCyclin-dependent kinase 22.7.11.220.466
4nc3ERM5-hydroxytryptamine receptor 2B/0.466
1vj3TABDihydrofolate reductase1.5.1.30.465
3njoPYVAbscisic acid receptor PYR1/0.465
2blcCP7Bifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.464
2v58LZJBiotin carboxylase6.3.4.140.464
3vt5YI2Vitamin D3 receptor/0.464
4gg70J8Hepatocyte growth factor receptor2.7.10.10.464
5dn1AMZPhosphoribosyl isomerase A5.3.1.160.464
4qa2SHHHistone deacetylase 83.5.1.980.463
2hamC33Vitamin D3 receptor/0.462
3cseN22Uncharacterized protein/0.462
3ielU5PRibonuclease TTHA02523.10.462
3rkb12ZCyclin-dependent kinase 22.7.11.220.462
3um5CP6Bifunctional dihydrofolate reductase-thymidylate synthase/0.462
4h9506UDihydrofolate reductase1.5.1.30.462
4jubTPPBenzoylformate decarboxylase4.1.1.70.462
4n702HXSerine/threonine-protein kinase pim-12.7.11.10.462
1al8DHPPeroxisomal (S)-2-hydroxy-acid oxidase1.1.3.150.461
1e9hINRCyclin-dependent kinase 22.7.11.220.461
2b00GCHPhospholipase A2, major isoenzyme3.1.1.40.461
2bl9CP6Bifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.461
3c3dFO12-phospho-L-lactate transferase/0.461
3qfxCP6Bifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.461
3vtdTKDVitamin D3 receptor/0.461
4fad0TBPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.461
4xe606UDihydrofolate reductase1.5.1.30.461
2giuFBREstrogen receptor beta/0.460
2vagV25Dual specificity protein kinase CLK12.7.12.10.460
3irm1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.460
4klaCHDFerrochelatase, mitochondrial4.99.1.10.460
4oacADPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.460
1h1pCMGCyclin-dependent kinase 22.7.11.220.459
1rx6DDFDihydrofolate reductase1.5.1.30.459
2blaCP6Bifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.459
2o65MYFSerine/threonine-protein kinase pim-12.7.11.10.459
2hb7O1CVitamin D3 receptor/0.458
3apfBMWPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.458
3qly55VUncharacterized protein/0.458
1tvrTB9Gag-Pol polyprotein2.7.7.490.457
2vz6FEFCalcium/calmodulin-dependent protein kinase type II subunit alpha2.7.11.170.457
3nizADPCdc2-like CDK2/CDC28 like protein kinase/0.457
4flh14KPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.457
4jqeANPCasein kinase II subunit alpha2.7.11.10.457
1j3iWRABifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.456
2azzTCHPhospholipase A2, major isoenzyme3.1.1.40.456
3b5iSAHIndole-3-acetate O-methyltransferase 1/0.456
3pqbVGPPutative oxidoreductase/0.456
3qn1A8SAbscisic acid receptor PYR1/0.456
4ds8A8SAbscisic acid receptor PYL3/0.456
1f4gTP4Thymidylate synthase/0.455
4fjyFJYPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.455
4iteTEYVitamin D3 receptor/0.455
1s0zEB1Vitamin D3 receptor/0.454
1s3yTQTDihydrofolate reductase1.5.1.30.454
1tdcUMPThymidylate synthase/0.454
2g1pSAHDNA adenine methylase2.1.1.720.454
2y7jB49Phosphorylase b kinase gamma catalytic chain, liver/testis isoform2.7.11.190.454
3czr3CZCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.454
3ml8ML8Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.454
3nr4PYVAbscisic acid receptor PYL2/0.454
4fhh0U3Vitamin D3 receptor A/0.454
4g1z0VPVitamin D3 receptor A/0.454
1kl2FONSerine hydroxymethyltransferase/0.453
1nhz486Glucocorticoid receptor/0.453
2j3jHC4NADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.453
2oaxSNLMineralocorticoid receptor/0.453
4anmWULCasein kinase II subunit alpha2.7.11.10.453
4g1y0VOVitamin D3 receptor A/0.453
4o71CPBBromodomain-containing protein 4/0.453
1dajMOTDihydrofolate reductase1.5.1.30.452
2c7xNRBCytochrome P450 monooxygenase PikC/0.452
3lanKBTGag-Pol polyprotein2.7.7.490.452
3qlwN22Dihydrofolate reductase1.5.1.30.452
3srsM23Dihydrofolate reductase1.5.1.30.452
4bgg844Activin receptor type-12.7.11.300.452
4h9814QUncharacterized protein/0.452
4hvb19PPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.452
1rf7DHFDihydrofolate reductase1.5.1.30.451
2wihP48Cyclin-dependent kinase 22.7.11.220.451
3ar4TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.451
3blrCPBCyclin-dependent kinase 92.7.11.220.451
3qlzQLZUncharacterized protein/0.451
3r9dX6BCyclin-dependent kinase 22.7.11.220.451
3s2a2NQPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.451
4aojV4ZHigh affinity nerve growth factor receptor2.7.10.10.451
4rr7A3SProbable threonine--tRNA ligase 26.1.1.30.451
1klmSPPGag-Pol polyprotein2.7.7.490.450
1y91CT9Cyclin-dependent kinase 22.7.11.220.450
2f2cAP9Cyclin-dependent kinase 62.7.11.220.450
2ourCMPcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.450
2uzeC95Cyclin-dependent kinase 22.7.11.220.450
2zjwREFCasein kinase II subunit alpha2.7.11.10.450
3dhcCYKN-acyl homoserine lactonase AiiA3.1.1.810.450
3vrvYSDVitamin D3 receptor/0.450
4dymIYZActivin receptor type-12.7.11.300.450
4h9614QDihydrofolate reductase1.5.1.30.450
1rk3VDXVitamin D3 receptor/0.449
1rkhVD2Vitamin D3 receptor/0.449
2e9uA25Serine/threonine-protein kinase Chk12.7.11.10.449
2fzjDH3Dihydrofolate reductase1.5.1.30.449
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.449
3gwfNAPCyclohexanone monooxygenase/0.449
3mdvCL6Cholesterol 24-hydroxylase/0.449
3sh25DRDihydrofolate reductase1.5.1.30.449
4eok4SPCyclin-dependent kinase 22.7.11.220.449
4i7fNVEGag-Pol polyprotein2.7.7.490.449
5d7q4I5NAD-dependent protein deacetylase sirtuin-23.5.10.449
1diuBDMDihydrofolate reductase1.5.1.30.448
1oguST8Cyclin-dependent kinase 22.7.11.220.448
2iw84SPCyclin-dependent kinase 22.7.11.220.448
2j8zNAPQuinone oxidoreductase PIG310.448
3ar5TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.448
3lfqA28Cyclin-dependent kinase 22.7.11.220.448
3njoP2MAbscisic acid receptor PYR1/0.448
3pd3A3TThreonine--tRNA ligase6.1.1.30.448
3sruQ26Dihydrofolate reductase1.5.1.30.448
4cd2FOLDihydrofolate reductase1.5.1.30.448
4ejh0QACytochrome P450 2A131.14.14.10.448
4eoi1ROCyclin-dependent kinase 22.7.11.220.448
4lsjLSJGlucocorticoid receptor/0.448
4pkl1GHUncharacterized protein/0.448
4rupH97Vitamin D3 receptor A/0.448
1e7vLY2Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.447
1e8xATPPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.447
1tw2ERTCarminomycin 4-O-methyltransferase DnrK2.1.1.2920.447
2hb8MVDVitamin D3 receptor/0.447
2x7gPVBSRSF protein kinase 22.7.11.10.447
3a60STURibosomal protein S6 kinase beta-12.7.11.10.447
3h3t16HCollagen type IV alpha-3-binding protein/0.447
3oafOAGDihydrofolate reductase1.5.1.30.447
3vtbTKAVitamin D3 receptor/0.447
4c02TAKActivin receptor type-12.7.11.300.447
4fi1ATPCasein kinase II subunit alpha2.7.11.10.447
4g210VPVitamin D3 receptor A/0.447
4jvmXDIEstrogen sulfotransferase2.8.2.40.447
1m7aMQUDihydrofolate reductase1.5.1.30.446
1rx5DDFDihydrofolate reductase1.5.1.30.446
1v79FR7Adenosine deaminase3.5.4.40.446
2jn3JN3Fatty acid-binding protein, liver/0.446
2wgjVGHHepatocyte growth factor receptor2.7.10.10.446
2xvw9NRSerum albumin/0.446
2zv2609Calcium/calmodulin-dependent protein kinase kinase 22.7.11.170.446
3ezrEZRCyclin-dependent kinase 22.7.11.220.446
3kjsDQ1Bifunctional dihydrofolate reductase-thymidylate synthase/0.446
3sqq99ZCyclin-dependent kinase 22.7.11.220.446
3vt3VDXVitamin D3 receptor/0.446
1dduCB3Thymidylate synthase/0.445
1e7wMTXPteridine reductase 11.5.1.330.445
1tlcF89Thymidylate synthase/0.445
1x8lOXRRetinol dehydratase/0.445
3h18PMSEsterase/lipase/0.445
3p99LNPLanosterol 14-alpha-demethylase/0.445
3qgtCP6Bifunctional dihydrofolate reductase-thymidylate synthase/0.445
4ia7BIVVitamin D3 receptor A/0.445
4iarERM5-hydroxytryptamine receptor 1B/0.445
4mq22C4Dual specificity tyrosine-phosphorylation-regulated kinase 1A2.7.12.10.445
4mryCEIObelin/0.445
4oh4ANPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.445
5cccDDFDihydrofolate reductase1.5.1.30.445
1fkoEFZGag-Pol polyprotein2.7.7.490.444
1lhvNOGSex hormone-binding globulin/0.444
1o5rFR9Adenosine deaminase3.5.4.40.444
1s19MC9Vitamin D3 receptor/0.444
2azyCHDPhospholipase A2, major isoenzyme3.1.1.40.444
2broDF2Serine/threonine-protein kinase Chk12.7.11.10.444
3mtfA3FActivin receptor type-12.7.11.300.444
3oqkS52Renin3.4.23.150.444
3qqlX03Cyclin-dependent kinase 22.7.11.220.444
3u8hBHPPhospholipase A2, membrane associated/0.444
3zkyWT4Isopenicillin N synthase1.21.3.10.444
4f700STCyclin-dependent kinase 82.7.11.220.444
4u97STUInterleukin-1 receptor-associated kinase 42.7.11.10.444
1cqp803Integrin alpha-L/0.443
2b55D31Cyclin-dependent kinase 22.7.11.220.443
2c6tDT5Cyclin-dependent kinase 22.7.11.220.443
3sai9DRDihydrofolate reductase/0.443
3sgv2BJDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.443
3tvqDQHMultifunctional cyclase-dehydratase-3-O-methyl transferase TcmN2.1.10.443
3w5p4OAVitamin D3 receptor/0.443
4bb3KKAIsopenicillin N synthase1.21.3.10.443
1hfqMOTDihydrofolate reductase1.5.1.30.442
1ludTRRDihydrofolate reductase1.5.1.30.442
1vjy460TGF-beta receptor type-12.7.11.300.442
2cchATPCyclin-dependent kinase 22.7.11.220.442
2w3wVG9Dihydrofolate reductase/0.442
3a4pDFQHepatocyte growth factor receptor2.7.10.10.442
3my5RFZCyclin-dependent kinase 22.7.11.220.442
4dpdDHFBifunctional dihydrofolate reductase-thymidylate synthase/0.442
1db1VDXVitamin D3 receptor/0.441
1kt3RTLRetinol-binding protein 4/0.441
1mrqSTRAldo-keto reductase family 1 member C1/0.441
1v0oINRCell division control protein 2 homolog2.7.11.220.441
1xwsBI1Serine/threonine-protein kinase pim-12.7.11.10.441
2c5nCK8Cyclin-dependent kinase 22.7.11.220.441
2cgw3C3Serine/threonine-protein kinase Chk12.7.11.10.441
2e9p77ASerine/threonine-protein kinase Chk12.7.11.10.441
2i0ePDSProtein kinase C beta type2.7.11.130.441
2wouZZFTGF-beta receptor type-12.7.11.300.441
3bgpVX1Serine/threonine-protein kinase pim-12.7.11.10.441
3gc9B45Mitogen-activated protein kinase 112.7.11.240.441
3mx5UTPNucleoprotein/0.441
3nmpPYVAbscisic acid receptor PYL2/0.441
3oa2NADUDP-N-acetyl-2-amino-2-deoxy-D-glucuronate oxidase/0.441
3rak03ZCyclin-dependent kinase 22.7.11.220.441
4aoi4K0Hepatocyte growth factor receptor2.7.10.10.441
4g20484Vitamin D3 receptor A/0.441
4gfg0XFTyrosine-protein kinase SYK2.7.10.20.441
4iyg1HUStrictosidine synthase4.3.3.20.441
4jzr4JREgl nine homolog 1/0.441
3qakUKAAdenosine receptor A2a/0.441
1kqwRTLCellular retinol-binding protein type II/0.440
1y2c3DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.440
2iw6QQ2Cyclin-dependent kinase 22.7.11.220.440
2uzdC85Cyclin-dependent kinase 22.7.11.220.440
2vu3LZECyclin-dependent kinase 22.7.11.220.440
2xweAMFGlucosylceramidase3.2.1.450.440
3elySAHMethyltransferase/0.440
3ey4352Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.440
3fwfCAMCamphor 5-monooxygenase1.14.15.10.440
3jziJZLBiotin carboxylase6.3.4.140.440
3qrtX14Cyclin-dependent kinase 22.7.11.220.440
3ujlA8SAbscisic acid receptor PYL2/0.440
3vt8YI3Vitamin D3 receptor/0.440
4bqpVMYEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.440
4dp3MMVBifunctional dihydrofolate reductase-thymidylate synthase/0.440
4dtk7LISerine/threonine-protein kinase pim-12.7.11.10.440
4fhi0S4Vitamin D3 receptor A/0.440
4ixeIXEDihydrofolate reductase1.5.1.30.440
4ky404JBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.440
4l8u9AZSerum albumin/0.440
4nkvAERSteroid 17-alpha-hydroxylase/17,20 lyase/0.440
4tx9AMZPhosphoribosyl isomerase A/0.440