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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
2g76NADD-3-phosphoglycerate dehydrogenase1.1.1.95

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2g76NADD-3-phosphoglycerate dehydrogenase1.1.1.951.000
2eklNADD-3-phosphoglycerate dehydrogenase/0.521
5bqfNAPProbable hydroxyacid dehydrogenase protein/0.520
4lcjNADC-terminal-binding protein 2/0.505
2w2lNADD-mandelate dehydrogenase/0.504
1dxyNADD-2-hydroxyisocaproate dehydrogenase1.1.10.500
2omeNADC-terminal-binding protein 2/0.497
2gjlFMNNitronate monooxygenase1.13.12.160.492
4z0pNDPNAD-dependent dehydrogenase/0.491
1hkuNADC-terminal-binding protein 11.1.10.487
1wntNAPL-xylulose reductase1.1.1.100.482
1wvgAPRCDP-glucose 4,6-dehydratase4.2.1.450.481
4xcvNDPProbable hydroxyacid dehydrogenase protein/0.481
1hygNAPL-2-hydroxycarboxylate dehydrogenase (NAD(P)(+))/0.478
2givACOHistone acetyltransferase KAT8/0.478
4weqNAPNAD-dependent dehydrogenase/0.476
3bazNAPHydroxyphenylpyruvate reductase1.1.1.2370.475
2ou2ACOHistone acetyltransferase KAT5/0.474
1h73ANPHomoserine kinase2.7.1.390.473
2dbzNAPGlyoxylate reductase1.1.1.260.473
4egbNADdTDP-glucose 4,6-dehydratase/0.471
3to6LYS_CMCHistone acetyltransferase ESA1/0.469
5j23A2RPutative 2-hydroxyacid dehydrogenase/0.469
2o1sTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.468
4nd2A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.468
1b8uNADMalate dehydrogenase/0.467
1h74ADPHomoserine kinase2.7.1.390.465
4bfvZVVPantothenate kinase2.7.1.330.465
3kb6NADD-lactate dehydrogenase/0.464
1u3cFADCryptochrome-1/0.462
2hu2NADC-terminal binding protein 1/0.462
2x7hPFNProstaglandin reductase 310.462
3oetNADErythronate-4-phosphate dehydrogenase/0.462
1mjbACOHistone acetyltransferase ESA1/0.461
2dbqNAPGlyoxylate reductase1.1.1.260.460
4uwmFMN3,6-diketocamphane 1,6 monooxygenase1.14.130.460
1n7hNDPGDP-mannose 4,6 dehydratase 24.2.1.470.459
4nu5NADPhosphonate dehydrogenase1.20.1.10.458
2a92NAIL-lactate dehydrogenase/0.457
4g7gVFVLanosterol 14-alpha-demethylase/0.457
2x0iNAIMalate dehydrogenase/0.456
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.455
3d3wNAPL-xylulose reductase1.1.1.100.455
3f3sNADLambda-crystallin homolog/0.454
1mj9COAHistone acetyltransferase ESA1/0.453
2fznFADBifunctional protein PutA1.5.5.20.453
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.453
1rkxNADCDP-D-glucose-4,6-dehydratase/0.452
2q4bNAPUncharacterized protein At5g02240/0.452
4m83ERYOleandomycin glycosyltransferase2.4.10.452
1dg8NDPDihydrofolate reductase1.5.1.30.451
1psdNADD-3-phosphoglycerate dehydrogenase1.1.1.950.451
4i8x6P3L-lactate dehydrogenase A chain1.1.1.270.451
5dcyNAPIridoid synthase1.3.1.990.451
2dteNAIGlucose 1-dehydrogenase related protein/0.450
4b1rITCTetracycline repressor protein class D/0.450
3ukoNADAlcohol dehydrogenase class-3/0.449
4ambDUDPutative glycosyl transferase/0.449
4ma628EAra h 8 allergen/0.449
3a28NADL-2,3-butanediol dehydrogenase1.1.1.760.448
1szgFNSCytochrome b2, mitochondrial1.1.2.30.447
2gmhFADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial1.5.5.10.447
2y0mACOHistone acetyltransferase KAT8/0.447
3te5NAI5'-AMP-activated protein kinase subunit gamma/0.447
4ap3FADSteroid monooxygenase/0.447
4e5mNAPPhosphonate dehydrogenase1.20.1.10.447
4ewn0VRImidazole glycerol phosphate synthase subunit HisF4.1.30.447
4jnkNAIL-lactate dehydrogenase A chain1.1.1.270.447
4u8oFDAUDP-galactopyranose mutase/0.447
1h6cNDPGlucose--fructose oxidoreductase1.1.99.280.446
1me6IVSPlasmepsin-23.4.23.390.446
2zb3NDPProstaglandin reductase 21.3.1.480.446
3ggoNAIPrephenate dehydrogenase/0.446
3p4tFAOPutative acyl-CoA dehydrogenase/0.446
4bb3KKAIsopenicillin N synthase1.21.3.10.446
3d8bADPFidgetin-like protein 13.6.40.445
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.445
4wjiNAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase/0.445
5dbgNADIridoid synthase1.3.1.990.445
1nuqNXXNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.444
1qjfACSIsopenicillin N synthase1.21.3.10.444
1ri1GTGmRNA cap guanine-N7 methyltransferase2.1.1.560.444
2g5cNADPrephenate dehydrogenase/0.444
2o4cNADErythronate-4-phosphate dehydrogenase/0.444
2zh6ATPCCA-adding enzyme2.7.7.720.444
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.444
4e5nNADPhosphonate dehydrogenase1.20.1.10.444
5a3cNADSIR2 family protein/0.444
1nhpFADNADH peroxidase1.11.1.10.443
2bfqAR6[Protein ADP-ribosylglutamate] hydrolase AF_15213.2.20.443
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.443
3lqfNADGalactitol dehydrogenase/0.443
4fm80UQBeta-secretase 13.4.23.460.443
4q71FADBifunctional protein PutA/0.443
1fy7COAHistone acetyltransferase ESA1/0.442
2d29FADAcyl-CoA dehydrogenase/0.442
3kjrNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.442
3oq6NAJAlcohol dehydrogenase E chain1.1.1.10.442
4dfg0JVGag-Pol polyprotein3.4.23.160.442
4m4922YL-lactate dehydrogenase A chain1.1.1.270.442
4o671SYCyclic GMP-AMP synthase/0.442
4yxm2BADNA integrity scanning protein DisA/0.442
1pr9NAPL-xylulose reductase1.1.1.100.441
2d1yNADOxidoreductase, short-chain dehydrogenase/reductase family/0.441
2jkvNAP6-phosphogluconate dehydrogenase, decarboxylating1.1.1.440.441
3a4vNADNDP-sugar epimerase/0.441
3k4nFADPyranose 2-oxidase/0.441
3ruhNADUDP-N-acetylglucosamine 4-epimerase/0.441
3utgFDAUDP-galactopyranose mutase/0.441
4at0FADPossible succinate dehydrogenase/0.441
4ddhMS0Pantothenate synthetase6.3.2.10.441
4g3jVNTLanosterol 14-alpha-demethylase/0.441
4gl4NAIAlcohol dehydrogenase class-3/0.441
4yaoFMNNADPH--cytochrome P450 reductase/0.441
1yqzCOACoenzyme A disulfide reductase/0.440
2c27ACOMycothiol acetyltransferase2.3.1.1890.440
2gevCOKPantothenate kinase2.7.1.330.440
2y65ADPKinesin heavy chain/0.440
4bfzZVZPantothenate kinase2.7.1.330.440
5idwNAPShort-chain dehydrogenase/reductase SDR/0.440