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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
1kfcIPLTryptophan synthase alpha chain

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
1kfcIPLTryptophan synthase alpha chain/1.000
2rhgIGPTryptophan synthase alpha chain/0.687
1qoqIGPTryptophan synthase alpha chain/0.686
1k7fIAVTryptophan synthase alpha chain/0.670
2rh9IGPTryptophan synthase alpha chain/0.658
1kfbIGPTryptophan synthase alpha chain/0.623
1a5bIGPTryptophan synthase alpha chain/0.579
1beuIPLTryptophan synthase alpha chain/0.571
4zqcF6FTryptophan synthase alpha chain/0.523
1k8y13PTryptophan synthase alpha chain/0.520
4y6gF6FTryptophan synthase alpha chain/0.516
2clfF6FTryptophan synthase alpha chain/0.509
2clmF6FTryptophan synthase alpha chain/0.506
3u9eCOALmo1369 protein/0.501
4wx2F6FTryptophan synthase alpha chain/0.495
4wx2F6FTryptophan synthase beta chain4.2.1.200.495
2cleF6FTryptophan synthase alpha chain/0.484
3h3qH13Collagen type IV alpha-3-binding protein/0.483
4bfuZVUPantothenate kinase2.7.1.330.480
4o1mNADEnoyl-acyl carrier reductase/0.480
3wycNAPMeso-diaminopimelate D-dehydrogenase1.4.1.160.479
4g3jVNTLanosterol 14-alpha-demethylase/0.479
3atzFMNProstaglandin F2a synthase/0.476
2qs4LY5Glutamate receptor ionotropic, kainate 1/0.475
5a9sNAPPutative dehydrogenase/0.475
2fy4COACholine O-acetyltransferase2.3.1.60.474
4ddhMS0Pantothenate synthetase6.3.2.10.474
4nd2A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.473
5jydNADShort chain dehydrogenase/0.473
3isjA8DPantothenate synthetase6.3.2.10.471
1a5sFIPTryptophan synthase alpha chain/0.470
1k8zIAGTryptophan synthase alpha chain/0.469
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.469
4djhJDCKappa-type opioid receptor/0.469
3h3sH15Collagen type IV alpha-3-binding protein/0.468
3h3t16HCollagen type IV alpha-3-binding protein/0.468
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.468
3etdNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.467
3g70A5TRenin3.4.23.150.467
3te5NAI5'-AMP-activated protein kinase subunit gamma/0.467
4j0v1H7Beta-secretase 13.4.23.460.467
4nd3NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.467
4yaoFMNNADPH--cytochrome P450 reductase/0.466
3dv3MEKDual specificity mitogen-activated protein kinase kinase 12.7.12.20.465
4eywL0RCarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.464
1m78NDPDihydrofolate reductase1.5.1.30.463
2bjfDXCCholoylglycine hydrolase3.5.1.240.463
3a28NADL-2,3-butanediol dehydrogenase1.1.1.760.463
3h3r14HCollagen type IV alpha-3-binding protein/0.463
1xe65FPPlasmepsin-23.4.23.390.462
4opiFDAConserved Archaeal protein/0.462
3ajrNADNDP-sugar epimerase/0.461
3dafFEG5,10-methenyltetrahydromethanopterin hydrogenase1.12.98.20.461
4oplFDAConserved Archaeal protein/0.461
1kkq471Peroxisome proliferator-activated receptor alpha/0.460
1x1cSAHC-20 methyltransferase/0.460
2iqgF2IBeta-secretase 13.4.23.460.460
2uxoTACHTH-type transcriptional regulator TtgR/0.460
2znnS44Peroxisome proliferator-activated receptor alpha/0.460
3iocA5DPantothenate synthetase6.3.2.10.460
3ivgFG5Pantothenate synthetase6.3.2.10.460
4eudCOASuccinyl-CoA:acetate CoA-transferase/0.460
4g9kFADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial1.6.5.90.460
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.460
1bp6UMPThymidylate synthase/0.459
1n2jPAFPantothenate synthetase6.3.2.10.459
2a94AP0L-lactate dehydrogenase1.1.1.270.459
2p83MR0Beta-secretase 13.4.23.460.459
4boeCLRJapanin/0.459
4q71FADBifunctional protein PutA/0.459
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.458
4jicFMNGTN Reductase/0.458
2vn0TDZCytochrome P450 2C8/0.457
2xc3RT8Steroid C26-monooxygenase1.14.13.1410.456
1bwsNDPGDP-L-fucose synthase/0.455
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.455
1tv8SAMGTP 3',8-cyclase4.1.99.180.455
2vwqNAPGlucose 1-dehydrogenase/0.455
4jhz1KVBeta-glucuronidase3.2.1.310.455
1bwlFMNNADPH dehydrogenase 11.6.99.10.454
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.454
1t2cNAIL-lactate dehydrogenase1.1.1.270.454
2cjfRP43-dehydroquinate dehydratase4.2.1.100.454
4bfvZVVPantothenate kinase2.7.1.330.454
4df2FMNNADPH dehydrogenase/0.454
4i8zG08Gag-Pol polyprotein3.4.23.160.454
1h73ANPHomoserine kinase2.7.1.390.453
1xddAAYIntegrin alpha-L/0.453
2ejvNADL-threonine 3-dehydrogenase/0.453
3f03FMNPentaerythritol tetranitrate reductase/0.453
3gobHXXDdmC/0.453
3lzs017Gag-Pol polyprotein3.4.23.160.453
4ejmNAPPutative zinc-binding dehydrogenase/0.453
5eb5FAD(R)-mandelonitrile lyase 14.1.2.100.453
1f8wFADNADH peroxidase1.11.1.10.452
1zeoC01Peroxisome proliferator-activated receptor gamma/0.452
2dftADPShikimate kinase2.7.1.710.452
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.452
3b6zCO7Enoyl reductase LovC10.452
3gkaFMNN-ethylmaleimide reductase/0.452
3gw9VNILanosterol 14-alpha-demethylase/0.452
3r83Z14Cyclin-dependent kinase 22.7.11.220.452
4q72FADBifunctional protein PutA/0.452
1f8gNADNAD(P) transhydrogenase subunit alpha part 11.6.1.20.451
1x1bSAHC-20 methyltransferase/0.451
1yb5NAPQuinone oxidoreductase1.6.5.50.451
1zgyBRLPeroxisome proliferator-activated receptor gamma/0.451
2fzmFADBifunctional protein PutA1.5.5.20.451
2ien017Gag-Pol polyprotein3.4.23.160.451
3imeBZ2Pantothenate synthetase6.3.2.10.451
4iqlFMNEnoyl-(Acyl-carrier-protein) reductase II/0.451
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.450
1n77ATPGlutamate--tRNA ligase6.1.1.170.450
2ojg19AMitogen-activated protein kinase 12.7.11.240.450
3lqfNADGalactitol dehydrogenase/0.450
3tkiS25Serine/threonine-protein kinase Chk12.7.11.10.450
4xcvNDPProbable hydroxyacid dehydrogenase protein/0.450
1dirNADDihydropteridine reductase1.5.1.340.449
1ha3MAUElongation factor Tu-A/0.449
1i7gAZ2Peroxisome proliferator-activated receptor alpha/0.449
1tqf32PBeta-secretase 13.4.23.460.449
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.449
2g1y5IGRenin3.4.23.150.449
2gv8NDPThiol-specific monooxygenase1.14.130.449
2ikuLIYRenin3.4.23.150.449
2rcyNAPPyrroline-5-carboxylate reductase/0.449
3k5c0BIBeta-secretase 13.4.23.460.449
4a8v2ANMajor pollen allergen Bet v 1-J/0.449
4bftZVTPantothenate kinase2.7.1.330.449
4q73FADBifunctional protein PutA/0.449
4qecNAPElxO/0.449
4rnuFMNNADPH dehydrogenase 11.6.99.10.449
1hygNAPL-2-hydroxycarboxylate dehydrogenase (NAD(P)(+))/0.448
1o9bNAIQuinate/shikimate dehydrogenase/0.448
2fy5SOPCholine O-acetyltransferase2.3.1.60.448
3etgNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.448
3ivxFG6Pantothenate synthetase6.3.2.10.448
3mvqNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.448
3rpeFADPutative modulator of drug activity/0.448
3tjzGNPADP-ribosylation factor 1/0.448
3toh079Gag-Pol polyprotein2.7.7.490.448
4nieNBHNuclear receptor ROR-gamma/0.448
4yr9NADL-threonine 3-dehydrogenase, mitochondrial1.1.1.1030.448
1lbcCYZGlutamate receptor 2/0.447
2a7r5GPGMP reductase 2/0.447
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.447
2ph835ABeta-secretase 13.4.23.460.447
2yj5ATPCopper-transporting ATPase/0.447
3imgBZ2Pantothenate synthetase6.3.2.10.447
3ruhNADUDP-N-acetylglucosamine 4-epimerase/0.447
1d4cFADFumarate reductase flavoprotein subunit1.3.5.40.446
2qtcTDKPyruvate dehydrogenase E1 component1.2.4.10.446
2rlcCHDCholoylglycine hydrolase3.5.1.240.446
2v13C40Renin3.4.23.150.446
2z1mNDPGDP-mannose 4,6-dehydratase/0.446
3afhGSUGlutamate--tRNA ligase 2/0.446
3coy53HPantothenate synthetase6.3.2.10.446
3mpjFADGlutaryl-CoA dehydrogenase1.3.99.320.446
4g74FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial1.6.5.90.446
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.446
1f20FADNitric oxide synthase, brain1.14.13.390.445
1h69FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.445
1l2tATPUncharacterized ABC transporter ATP-binding protein MJ0796/0.445
2fxv5GPXanthine phosphoribosyltransferase2.4.2.220.445
3cid318Beta-secretase 13.4.23.460.445
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.445
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.445
4bfzZVZPantothenate kinase2.7.1.330.445
4eakATP5'-AMP-activated protein kinase subunit gamma-1/0.445
4h3qANPMitogen-activated protein kinase 12.7.11.240.445
4m4922YL-lactate dehydrogenase A chain1.1.1.270.445
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.444
1vi2NADQuinate/shikimate dehydrogenase/0.444
1vyrFMNPentaerythritol tetranitrate reductase/0.444
2a92NAIL-lactate dehydrogenase/0.444
2qs3UBEGlutamate receptor ionotropic, kainate 1/0.444
2v9jATP5'-AMP-activated protein kinase subunit gamma-1/0.444
2ylzFADPhenylacetone monooxygenase1.14.13.920.444
3r3sNADPutative oxidoreductase/0.444
3zmg6Z0Beta-secretase 13.4.23.460.444
4g7gVFVLanosterol 14-alpha-demethylase/0.444
4m83ERYOleandomycin glycosyltransferase2.4.10.444
1bdbNADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase/0.443
1h50FMNPentaerythritol tetranitrate reductase/0.443
1k6tXN1Gag-Pol polyprotein3.4.23.160.443
1nvtNAPShikimate dehydrogenase (NADP(+))/0.443
1pg3PRXAcetyl-coenzyme A synthetase/0.443
1tj0FADBifunctional protein PutA1.5.5.20.443
1u3cFADCryptochrome-1/0.443
1z69F425,10-methylenetetrahydromethanopterin reductase/0.443
1z7yAA5Cysteine synthase 12.5.1.470.443
2fznFADBifunctional protein PutA1.5.5.20.443
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.443
2pchSAHDiphthine synthase/0.443
2x3fAPCPantothenate synthetase/0.443
2yd0BESEndoplasmic reticulum aminopeptidase 13.4.110.443
3hekBD0Heat shock protein HSP 90-alpha/0.443
3ivcFG4Pantothenate synthetase6.3.2.10.443
3ixp834Ecdysone receptor/0.443
3jziJZLBiotin carboxylase6.3.4.140.443
3of2NADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.443
4ctkSAMGenome polyprotein/0.443
4fw8NAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.443
4fxy0W2Neurolysin, mitochondrial3.4.24.160.443
4nbwNADShort-chain dehydrogenase/reductase SDR/0.443
1bvrNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
1gcoNADGlucose 1-dehydrogenase1.1.1.470.442
1me6IVSPlasmepsin-23.4.23.390.442
1x1aSAMC-20 methyltransferase/0.442
1xe55FEPlasmepsin-23.4.23.390.442
2ahrNAPPyrroline-5-carboxylate reductase/0.442
2g1o2IGRenin3.4.23.150.442
2il2LIXRenin3.4.23.150.442
3fwgCAMCamphor 5-monooxygenase1.14.15.10.442
3g5sFADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO/0.442
3p67FMNPentaerythritol tetranitrate reductase/0.442
1ddsMTXDihydrofolate reductase1.5.1.30.441
1f4gTP4Thymidylate synthase/0.441
1rdwLARActin, alpha skeletal muscle/0.441
1re7FOLDihydrofolate reductase1.5.1.30.441
1xs7MMIBeta-secretase 13.4.23.460.441
2abbFMNPentaerythritol tetranitrate reductase/0.441
2xfyACXBeta-amylase3.2.1.20.441
3kb1ADPIron-sulfur cluster carrier protein/0.441
3otbDGTProbable tRNA(His) guanylyltransferase2.7.7.790.441
3p82FMNPentaerythritol tetranitrate reductase/0.441
3phiNDPShikimate dehydrogenase (NADP(+))/0.441
3vswR31Renin3.4.23.150.441
4frkDWDBeta-secretase 13.4.23.460.441
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.441
4k28NADShikimate dehydrogenase family protein/0.441
4u03GTPCyclic GMP-AMP synthase/0.441
4xumIMNPeroxisome proliferator-activated receptor gamma/0.441
1fcbFMNCytochrome b2, mitochondrial1.1.2.30.440
1gpdNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.440
1k7l544Peroxisome proliferator-activated receptor alpha/0.440
1odx0E8Gag-Pol polyprotein3.4.23.160.440
1rfvADPPyridoxal kinase2.7.1.350.440
1v9aSAHUncharacterized protein/0.440
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.440
2g1r3IGRenin3.4.23.150.440
2hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.440
2nnlNAPDihydroflavonol 4-reductase1.1.1.2190.440
2vouFAD2,6-dihydroxypyridine 3-monooxygenase1.14.13.100.440
3d4pNADL-lactate dehydrogenase 11.1.1.270.440
3flkNAITartrate dehydrogenase/decarboxylase1.1.1.930.440
3r7kFDAProbable acyl CoA dehydrogenase/0.440
4bgePYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.440
4e2bFMNDehydrogenase/0.440
4xguADPPutative pachytene checkpoint protein 2/0.440