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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
3d84NDPDihydrofolate reductase1.5.1.3

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3d84NDPDihydrofolate reductase1.5.1.31.000
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.605
2w3bNDPDihydrofolate reductase1.5.1.30.586
1dr5NAPDihydrofolate reductase1.5.1.30.585
3nxxNDPDihydrofolate reductase1.5.1.30.585
3qlrNDPDihydrofolate reductase1.5.1.30.578
3tqaNDPDihydrofolate reductase/0.577
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.575
1dr2TAPDihydrofolate reductase1.5.1.30.567
3qlsNDPDihydrofolate reductase1.5.1.30.565
5eccNAPDehydrofolate reductase type I/0.563
1dr3TAPDihydrofolate reductase1.5.1.30.561
2h2qNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.552
3clbNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.543
4m6jNDPDihydrofolate reductase1.5.1.30.543
1ai9NDPDihydrofolate reductase1.5.1.30.533
1rx1NAPDihydrofolate reductase1.5.1.30.531
2cig1DGDihydrofolate reductase1.5.1.30.530
1ia1NDPDihydrofolate reductase1.5.1.30.526
4kl9NDPDihydrofolate reductase1.5.1.30.526
3invNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.521
1drhNAPDihydrofolate reductase1.5.1.30.517
1m78NDPDihydrofolate reductase1.5.1.30.517
3hbbNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.517
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.488
1jolFFODihydrofolate reductase1.5.1.30.482
4g95OAGDihydrofolate reductase1.5.1.30.481
2pr2DG1Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.479
1tehNADAlcohol dehydrogenase class-31.1.1.10.475
3kjrNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.474
1ia4TQ6Dihydrofolate reductase1.5.1.30.473
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.473
3oafOAGDihydrofolate reductase1.5.1.30.473
4bfxZVXPantothenate kinase2.7.1.330.471
4q71FADBifunctional protein PutA/0.471
4gl4NAIAlcohol dehydrogenase class-3/0.468
2aqiNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.462
2gjlFMNNitronate monooxygenase1.13.12.160.461
3tjzGNPADP-ribosylation factor 1/0.461
4q72FADBifunctional protein PutA/0.461
4trnNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.460
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.459
1xe55FEPlasmepsin-23.4.23.390.459
4ambDUDPutative glycosyl transferase/0.459
2xw7NDPDihydrofolate reductase/0.458
3a3gDLZLumazine protein/0.458
3b70NAPEnoyl reductase LovC10.458
2g8yNADHydroxycarboxylate dehydrogenase B/0.457
2w9hTOPDihydrofolate reductase1.5.1.30.456
4klaCHDFerrochelatase, mitochondrial4.99.1.10.456
1u71MXADihydrofolate reductase1.5.1.30.455
1f8fNADBenzyl alcohol dehydrogenase/0.454
1s3vTQDDihydrofolate reductase1.5.1.30.454
2y0mACOHistone acetyltransferase KAT8/0.454
4nmdFDABifunctional protein PutA/0.454
2po7CHDFerrochelatase, mitochondrial4.99.1.10.453
2c54NADGDP-mannose 3,5-epimerase5.1.3.180.452
3uylTYDProbable NDP-rhamnosyltransferase/0.452
4fw8NAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.452
2g25TDKPyruvate dehydrogenase E1 component1.2.4.10.451
3gqvNAPEnoyl reductase LovC10.451
3oibFDAPutative acyl-CoA dehydrogenase/0.451
3pm9FADPutative oxidoreductase/0.451
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.450
3b6zCO7Enoyl reductase LovC10.450
3lqfNADGalactitol dehydrogenase/0.450
3s7a684Dihydrofolate reductase1.5.1.30.450
1tsxUMPThymidylate synthase/0.449
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.449
4o59NADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.449
2ou2ACOHistone acetyltransferase KAT5/0.448
2v58LZJBiotin carboxylase6.3.4.140.448
2xc3RT8Steroid C26-monooxygenase1.14.13.1410.448
1k7l544Peroxisome proliferator-activated receptor alpha/0.446
1ot7IU5Bile acid receptor/0.446
2fonFADAcyl-coenzyme A oxidase/0.446
2npaMMBPeroxisome proliferator-activated receptor alpha/0.446
3i59N6RCRP-like cAMP-activated global transcriptional regulator/0.446
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.445
4n5nNAPAcetoacetyl-CoA reductase1.1.1.360.445
4q73FADBifunctional protein PutA/0.445
1u8fNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.444
2b37NADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.444
2rlcCHDCholoylglycine hydrolase3.5.1.240.444
3w32W32Epidermal growth factor receptor2.7.10.10.444
3zxsFADDeoxyribodipyrimidine photolyase-related protein/0.444
4g7gVFVLanosterol 14-alpha-demethylase/0.444
1xe65FPPlasmepsin-23.4.23.390.443
2zb3NDPProstaglandin reductase 21.3.1.480.443
4hbm0Y7E3 ubiquitin-protein ligase Mdm26.3.20.443
4z24FADPutative GMC-type oxidoreductase R13510.443
2a7r5GPGMP reductase 2/0.442
2aqkNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.442
3fpzAHZThiamine thiazole synthase/0.442
3g70A5TRenin3.4.23.150.442
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.442
3mpjFADGlutaryl-CoA dehydrogenase1.3.99.320.442
4ejn0R4RAC-alpha serine/threonine-protein kinase2.7.11.10.442
4nxuADPMitochondrial dynamics protein MID51/0.442
1g1aNADdTDP-glucose 4,6-dehydratase/0.441
1h73ANPHomoserine kinase2.7.1.390.441
1nuuNADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.441
1t2cNAIL-lactate dehydrogenase1.1.1.270.441
2dhfDZFDihydrofolate reductase1.5.1.30.441
3eluSAMMethyltransferase/0.441
3f63GTXGlutathione transferase GST1-4/0.441
4bftZVTPantothenate kinase2.7.1.330.441
4bfzZVZPantothenate kinase2.7.1.330.441
4dtiNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.441
4h8aNAIUreidoglycolate dehydrogenase (NAD(+))1.1.1.3500.441
4nd2A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.441
1kkq471Peroxisome proliferator-activated receptor alpha/0.440
3dheANDEstradiol 17-beta-dehydrogenase 11.1.1.620.440
3flzFLZMitogen-activated protein kinase 14/0.440
4djaFAD(6-4) photolyase/0.440
4g3jVNTLanosterol 14-alpha-demethylase/0.440
4is3NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 21.17.98.10.440