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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
2clhF19Tryptophan synthase alpha chain

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
2clhF19Tryptophan synthase alpha chain/1.000
2trsIPLTryptophan synthase alpha chain/0.630
1a50FIPTryptophan synthase alpha chain/0.627
4xugF9FTryptophan synthase alpha chain/0.624
1a5sFIPTryptophan synthase alpha chain/0.598
1fuyFIPTryptophan synthase alpha chain/0.584
1k8zIAGTryptophan synthase alpha chain/0.583
4y6gF6FTryptophan synthase alpha chain/0.578
2rh9IGPTryptophan synthase alpha chain/0.565
2clfF6FTryptophan synthase alpha chain/0.544
4zqcF6FTryptophan synthase alpha chain/0.529
1beuIPLTryptophan synthase alpha chain/0.506
4qa0SHHHistone deacetylase 83.5.1.980.506
2pobGW4Peroxisome proliferator-activated receptor gamma/0.492
3h3r14HCollagen type IV alpha-3-binding protein/0.491
5dc5B3NHistone deacetylase 83.5.1.980.489
1w22NHBHistone deacetylase 83.5.1.980.488
2qd4CHDFerrochelatase, mitochondrial4.99.1.10.488
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.482
4b12C23Glycylpeptide N-tetradecanoyltransferase/0.482
1k7fIAVTryptophan synthase alpha chain/0.481
4qa2SHHHistone deacetylase 83.5.1.980.480
1qoqIGPTryptophan synthase alpha chain/0.479
3sp9IL2Peroxisome proliferator-activated receptor delta/0.479
1zg32HIIsoflavone 4'-O-methyltransferase/0.478
1kfbIGPTryptophan synthase alpha chain/0.477
1q0zAKAAclacinomycin methylesterase RdmC3.1.1.950.477
2vqoTFGHistone deacetylase 43.5.1.980.476
4a30QMIGlycylpeptide N-tetradecanoyltransferase/0.474
4bcrWY1Peroxisome proliferator-activated receptor alpha/0.474
1nyxDRFPeroxisome proliferator-activated receptor gamma/0.473
1rsgFADPolyamine oxidase FMS1/0.473
2cleF6FTryptophan synthase alpha chain/0.473
2e9aB28Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.473
2hb8MVDVitamin D3 receptor/0.473
1zgyBRLPeroxisome proliferator-activated receptor gamma/0.472
4wx2F6FTryptophan synthase alpha chain/0.472
4wx2F6FTryptophan synthase beta chain4.2.1.200.472
1olmVTQSEC14-like protein 2/0.471
2q8sL92Peroxisome proliferator-activated receptor gamma/0.471
5bp9SAHPutative methyltransferase protein/0.471
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.470
2rhgIGPTryptophan synthase alpha chain/0.470
3nxyD2HDihydrofolate reductase1.5.1.30.470
1kfcIPLTryptophan synthase alpha chain/0.467
1zgaHMKIsoflavone 4'-O-methyltransferase/0.467
3ar6TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.467
3h3t16HCollagen type IV alpha-3-binding protein/0.467
3zecANPAdenosine monophosphate-protein transferase SoFic2.7.7.n10.467
3tdaPN0Cytochrome P450 2D6/0.466
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.466
1fm6BRLPeroxisome proliferator-activated receptor gamma/0.465
2o1xTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.465
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.465
4emaBRLPeroxisome proliferator-activated receptor gamma/0.464
4x81MVIMycinamicin III 3''-O-methyltransferase2.1.1.2370.464
4zowCLMMultidrug transporter MdfA/0.464
1i7iAZ2Peroxisome proliferator-activated receptor gamma/0.463
2hamC33Vitamin D3 receptor/0.463
4iteTEYVitamin D3 receptor/0.463
1zdwFLVPrenyltransferase/0.462
2qd3CHDFerrochelatase, mitochondrial4.99.1.10.462
3cseN22Uncharacterized protein/0.462
3k1wBFXRenin3.4.23.150.462
3n33AESBeta-peptidyl aminopeptidase BapA/0.462
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.462
5d1bTSNHistone deacetylase 83.5.1.980.462
3jziJZLBiotin carboxylase6.3.4.140.461
3x04GNPPhosphatidylinositol 5-phosphate 4-kinase type-2 beta2.7.1.1490.461
2q59240Peroxisome proliferator-activated receptor gamma/0.460
2z3uCRRCytochrome P450/0.460
3siiA1RUncharacterized protein/0.460
3sp6IL2Peroxisome proliferator-activated receptor alpha/0.460
4b13X25Glycylpeptide N-tetradecanoyltransferase/0.460
4l5b1UXDeoxycytidine kinase2.7.1.740.460
5kjePFBAlcohol dehydrogenase E chain1.1.1.10.460
2uxpCLMHTH-type transcriptional regulator TtgR/0.459
2v9jATP5'-AMP-activated protein kinase subunit gamma-1/0.459
2vbpVB1Isopenicillin N synthase1.21.3.10.459
3gytDL4Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.459
3l0lHC3Nuclear receptor ROR-gamma/0.459
4a2zVIQGlycylpeptide N-tetradecanoyltransferase/0.459
4f9mFCMPeroxisome proliferator-activated receptor gamma/0.459
1crbRTLRetinol-binding protein 1/0.458
1rdt570Peroxisome proliferator-activated receptor gamma/0.458
2azzTCHPhospholipase A2, major isoenzyme3.1.1.40.458
2znoS44Peroxisome proliferator-activated receptor gamma/0.458
3a783EVVitamin D3 receptor/0.458
3is9AC7Gag-Pol polyprotein2.7.7.490.458
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.458
4cax646Glycylpeptide N-tetradecanoyltransferase2.3.1.970.458
4jlj1NMDeoxycytidine kinase2.7.1.740.458
4n3r2GUTankyrase-12.4.2.300.458
1fm9570Peroxisome proliferator-activated receptor gamma/0.457
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.457
2q5p241Peroxisome proliferator-activated receptor gamma/0.457
3l6jZ90Alr2278 protein/0.457
3w0aDS5Vitamin D3 receptor/0.457
4hee14RPeroxisome proliferator-activated receptor gamma/0.457
4yau2AMNADPH--cytochrome P450 reductase/0.457
1fmlRTLRetinol dehydratase/0.456
1kzjCB3Thymidylate synthase/0.456
3qi4IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.456
1s0zEB1Vitamin D3 receptor/0.455
2j7cIDEBeta-glucosidase A3.2.1.210.455
2w3mFOLDihydrofolate reductase1.5.1.30.455
3akn11DFatty acid-binding protein, intestinal/0.455
3gxoMQAMitomycin biosynthesis 6-O-methyltransferase/0.455
3ipuO40Oxysterols receptor LXR-alpha/0.455
3k3ePDBHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.455
4a312CBGlycylpeptide N-tetradecanoyltransferase/0.455
1u0wSTLChalcone synthase 22.3.1.740.454
2brbPFQSerine/threonine-protein kinase Chk12.7.11.10.454
3gyuDL7Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.454
3jsiWTCHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.454
4bv9NDPKetimine reductase mu-crystallin1.5.1.250.454
5dozNDPJamJ/0.454
1fdtESTEstradiol 17-beta-dehydrogenase 11.1.1.620.453
1sweBTNStreptavidin/0.453
3ch6311Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.453
3g45988cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.453
3nxvD2FDihydrofolate reductase1.5.1.30.453
3sl2ATPSensor histidine kinase WalK/0.453
3ssmSAHMycinamicin VI 2''-O-methyltransferase/0.453
4m9aFDAAcyl-CoA dehydrogenase/0.453
1ay0TPPTransketolase 12.2.1.10.452
1zgv501Prothrombin3.4.21.50.452
2znq401Peroxisome proliferator-activated receptor delta/0.452
3ar5TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.452
3dr1C5DVitamin D3 receptor A/0.452
3i0pNADMalate dehydrogenase, putative/0.452
3prfFP3Serine/threonine-protein kinase B-raf2.7.11.10.452
3ssoSAHMycinamicin VI 2''-O-methyltransferase/0.452
3up3XCAaceDAF-12/0.452
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.452
3sn6P0GBeta-2 adrenergic receptor/0.452
1fmjRTLRetinol dehydratase/0.451
1q5dEPBEpothilone C/D epoxidase1.140.451
1rk3VDXVitamin D3 receptor/0.451
1txiTX5Vitamin D3 receptor/0.451
1xwfADNAdenosylhomocysteinase3.3.1.10.451
2hasC3OVitamin D3 receptor/0.451
2vmyFFOSerine hydroxymethyltransferase/0.451
2y6fM9FIsopenicillin N synthase1.21.3.10.451
2znnS44Peroxisome proliferator-activated receptor alpha/0.451
2znpK55Peroxisome proliferator-activated receptor delta/0.451
3ldfSAHUncharacterized protein/0.451
3q2jCKIAminoglycoside 3'-phosphotransferase2.7.1.950.451
3vn2TLSPeroxisome proliferator-activated receptor gamma/0.451
4l33F70Tankyrase-22.4.2.300.451
4o701QKBromodomain-containing protein 4/0.451
4yal2AMNADPH--cytochrome P450 reductase/0.451
1iidNHMGlycylpeptide N-tetradecanoyltransferase2.3.1.970.450
1qzfCB3Bifunctional dihydrofolate reductase-thymidylate synthase/0.450
2cbrA80Cellular retinoic acid-binding protein 1/0.450
2in6839Wee1-like protein kinase2.7.10.20.450
2pl0STITyrosine-protein kinase Lck2.7.10.20.450
2po7CHDFerrochelatase, mitochondrial4.99.1.10.450
2x7hPFNProstaglandin reductase 310.450
3pg3DG7Mitogen-activated protein kinase 14/0.450
3r6pA8SAbscisic acid receptor PYL10/0.450
1k74544Peroxisome proliferator-activated receptor gamma/0.449
1ygjRMCPyridoxal kinase2.7.1.350.449
2ph5NADHomospermidine synthase/0.449
2y05RALProstaglandin reductase 1/0.449
3c0g3AMPeripheral plasma membrane protein CASK2.7.11.10.449
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.449
3nrrD16Bifunctional dihydrofolate reductase-thymidylate synthase/0.449
3s41S41Glucokinase2.7.1.20.449
4bb3KKAIsopenicillin N synthase1.21.3.10.449
4cdmFO1Deoxyribodipyrimidine photolyase/0.449
4do30LAFatty-acid amide hydrolase 13.5.1.990.449
4ky404JBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.449
4qa1B3NHistone deacetylase 83.5.1.980.449
4z9rNADOmega-3 polyunsaturated fatty acid synthase subunit PfaD/0.449
2hk9NAPShikimate dehydrogenase (NADP(+))/0.448
2qc8ADPGlutamine synthetase6.3.1.20.448
2wo7ASVIsopenicillin N synthase1.21.3.10.448
3bxxQUEDihydroflavonol 4-reductase1.1.1.2190.448
3dfrMTXDihydrofolate reductase1.5.1.30.448
3ipq965Oxysterols receptor LXR-alpha/0.448
3zrrPXGSerine-pyruvate aminotransferase (AgxT)/0.448
4qe6JN3Bile acid receptor/0.448
4x7zZM3Mycinamicin III 3''-O-methyltransferase2.1.1.2370.448
5hbsRTLRetinol-binding protein 1/0.448
1bxsNADRetinal dehydrogenase 11.2.1.360.447
1fvpFMANon-fluorescent flavoprotein/0.447
1i7gAZ2Peroxisome proliferator-activated receptor alpha/0.447
1itzTPPTransketolase, chloroplastic2.2.1.10.447
1trkTPPTransketolase 12.2.1.10.447
2abi1CAMineralocorticoid receptor/0.447
2bktRPFRenin3.4.23.150.447
2zynBCDPeriplasmic binding protein/0.447
3dheANDEstradiol 17-beta-dehydrogenase 11.1.1.620.447
3p9tTCLRepressor/0.447
3uptTPPTransketolase/0.447
3vspEK8Peroxisome proliferator-activated receptor gamma/0.447
4cjx9L9C-1-tetrahydrofolate synthase, cytoplasmic, putative/0.447
4hlh20DTankyrase-22.4.2.300.447
4hw219HInduced myeloid leukemia cell differentiation protein Mcl-1/0.447
4kzl20DTankyrase-22.4.2.300.447
4u9zCOAAlpha-tubulin N-acetyltransferase 1/0.447
1al8DHPPeroxisomal (S)-2-hydroxy-acid oxidase1.1.3.150.446
1c7oPPGHemolysin/0.446
1fduESTEstradiol 17-beta-dehydrogenase 11.1.1.620.446
1pkfEPDEpothilone C/D epoxidase1.140.446
1pq6965Oxysterols receptor LXR-beta/0.446
2az3CDPNucleoside diphosphate kinase/0.446
2ivpATPtRNA N6-adenosine threonylcarbamoyltransferase/0.446
3sgv2BJDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.446
4azwATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD/0.446
4bvaT3Ketimine reductase mu-crystallin1.5.1.250.446
4cvmANPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase/0.446
1hb3SCVIsopenicillin N synthase1.21.3.10.445
1y60H4M5,6,7,8-tetrahydromethanopterin hydro-lyase4.2.1.1470.445
2ij7TPFMycocyclosin synthase1.14.21.90.445
3bgxMEFThymidylate synthase/0.445
3g4iD71cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.445
3hu2AGSTransitional endoplasmic reticulum ATPase3.6.4.60.445
3kpzZNEVitamin D3 receptor/0.445
3wqmB29Diterpene synthase3.1.7.80.445
4ge90L0Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.445
4l321VFTankyrase-22.4.2.300.445
4rh10TTSpore photoproduct lyase/0.445
4xbfFADLysine-specific histone demethylase 1A10.445
1db1VDXVitamin D3 receptor/0.444
1dlrMXADihydrofolate reductase1.5.1.30.444
2bn4FADNADPH--cytochrome P450 reductase/0.444
2f0y3MNProtein farnesyltransferase subunit beta2.5.1.580.444
2hwrDRDPeroxisome proliferator-activated receptor gamma/0.444
2j40NAD1-pyrroline-5-carboxylate dehydrogenase/0.444
2vbdV10Isopenicillin N synthase1.21.3.10.444
3dylIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
3fkoFKOMitogen-activated protein kinase 14/0.444
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
3nxrD2DDihydrofolate reductase1.5.1.30.444
3oq6PFBAlcohol dehydrogenase E chain1.1.1.10.444
4awmKDHPolymerase acidic protein/0.444
4b4w9L9Bifunctional protein FolD/0.444
4hlf15ZTankyrase-22.4.2.300.444
4hlm16STankyrase-22.4.2.300.444
4l2f1V3Tankyrase-22.4.2.300.444
4l9kEHFSerum albumin/0.444
1dliUDXUDP-glucose 6-dehydrogenase/0.443
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.443
1t1sCBQ1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.443
1zeoC01Peroxisome proliferator-activated receptor gamma/0.443
2npaMMBPeroxisome proliferator-activated receptor alpha/0.443
4e5h0N8Polymerase acidic protein/0.443
4wuoNAD3-isopropylmalate dehydrogenase1.1.1.850.443
4xoqF42Coenzyme F420:L-glutamate ligase/0.443
5cb5APRO-acetyl-ADP-ribose deacetylase/0.443
1j7uANPAminoglycoside 3'-phosphotransferase2.7.1.950.442
1o1vTCHGastrotropin/0.442
1s3wTQTDihydrofolate reductase1.5.1.30.442
2gtk208Peroxisome proliferator-activated receptor gamma/0.442
2ovvPFHcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.442
2rlcCHDCholoylglycine hydrolase3.5.1.240.442
3d5qT30Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.442
3djlFADPutative acyl-CoA dehydrogenase AidB1.3.990.442
3n0hTOPDihydrofolate reductase1.5.1.30.442
3vrwYS5Vitamin D3 receptor/0.442
3vtdTKDVitamin D3 receptor/0.442
3x065GPPhosphatidylinositol 5-phosphate 4-kinase type-2 beta2.7.1.1490.442
4fjz4FJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
4l341VGTankyrase-22.4.2.300.442
4mv1ADPBiotin carboxylase6.3.4.140.442
4rtbSAMPutative thiazole biosynthesis protein ThiH/0.442
1f4gTP4Thymidylate synthase/0.441
1mczRMNBenzoylformate decarboxylase4.1.1.70.441
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441
1obnASVIsopenicillin N synthase1.21.3.10.441
1qipGNBLactoylglutathione lyase4.4.1.50.441
1svlADPLarge T antigen3.6.40.441
2fzhDH1Dihydrofolate reductase1.5.1.30.441
2g274LGRenin3.4.23.150.441
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.441
3mp5HMGHydroxymethylglutaryl-CoA lyase, mitochondrial4.1.3.40.441
3njoPYVAbscisic acid receptor PYR1/0.441
3nxtD2EDihydrofolate reductase1.5.1.30.441
4bufF36Tankyrase-22.4.2.300.441
4iarERM5-hydroxytryptamine receptor 1B/0.441
4l17DNQGlutamate receptor 2/0.441
3reyXACAdenosine receptor A2a/0.441
1w7kADPDihydrofolate synthase/folylpolyglutamate synthase6.3.2.120.440
1x8b824Wee1-like protein kinase2.7.10.20.440
1xl8152Peroxisomal carnitine O-octanoyltransferase2.3.1.1370.440
1yinCM3Estrogen receptor/0.440
2cjfRP43-dehydroquinate dehydratase4.2.1.100.440
2fziDH3Dihydrofolate reductase1.5.1.30.440
3da24MDCarbonic anhydrase 134.2.1.10.440
3g5sFADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO/0.440
3id8MRKGlucokinase2.7.1.20.440
3mwuBK3Calmodulin-domain protein kinase 1, putative/0.440
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.440
3tk0FADFAD-linked sulfhydryl oxidase ALR1.8.3.20.440
3upkUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.440
3zc3NAPFerredoxin--NADP reductase1.18.1.20.440
4a83DXCMajor pollen allergen Bet v 1-A/0.440
4a87NARMajor pollen allergen Bet v 1-A/0.440
4bfxZVXPantothenate kinase2.7.1.330.440
4bus32FTankyrase-22.4.2.300.440
4gi2NAPCrotonyl-CoA carboxylase/reductase/0.440
4h380YXDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.440
4yaw2AMNADPH--cytochrome P450 reductase/0.440