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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
3zqaNDPNAD/NADP-dependent betaine aldehyde dehydrogenase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3zqaNDPNAD/NADP-dependent betaine aldehyde dehydrogenase/1.000
2xdrNDPNAD/NADP-dependent betaine aldehyde dehydrogenase/0.653
2wmeNAPNAD/NADP-dependent betaine aldehyde dehydrogenase/0.591
4nmjNAPAldehyde dehydrogenase/0.508
1bpwNADBetaine aldehyde dehydrogenase1.2.1.80.507
3iwkNADAminoaldehyde dehydrogenase/0.500
3ju8NADN-succinylglutamate 5-semialdehyde dehydrogenase1.2.1.710.496
4nmkNAPAldehyde dehydrogenase/0.490
1o9jNADAldehyde dehydrogenase, cytosolic 11.2.1.30.483
2j40NAD1-pyrroline-5-carboxylate dehydrogenase/0.483
4v37NADBetaine aldehyde dehydrogenase, chloroplastic1.2.1.80.483
4i3wNADAldehyde dehydrogenase (NAD+)/0.479
2ehqNAP1-pyrroline-5-carboxylate dehydrogenase/0.478
3t4nADP5'-AMP-activated protein kinase subunit gamma/0.477
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.474
2bjaNAD1-pyrroline-5-carboxylate dehydrogenase/0.474
2j5nNAD1-pyrroline-5-carboxylate dehydrogenase/0.474
2ivnANPtRNA N6-adenosine threonylcarbamoyltransferase/0.472
3w0sANPHygromycin-B 4-O-kinase2.7.1.1630.467
4h73NDPAldehyde dehydrogenase/0.467
3up0D7SaceDAF-12/0.466
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.466
4l2oNADAldehyde dehydrogenase, dimeric NADP-preferring/0.465
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.464
4i3vNADAldehyde dehydrogenase (NAD+)/0.464
1ppjANYCytochrome b/0.463
1uxtNADNAD(P)-dependent glyceraldehyde-3-phosphate dehydrogenase/0.463
3rhoNAPCytosolic 10-formyltetrahydrofolate dehydrogenase1.5.1.60.463
4ng5PFBAlcohol dehydrogenase E chain1.1.1.10.463
4a0mNADBetaine aldehyde dehydrogenase, chloroplastic1.2.1.80.462
4x2qNADRetinal dehydrogenase 21.2.1.360.461
2ehuNAD1-pyrroline-5-carboxylate dehydrogenase/0.460
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.459
2qo9ANPEphrin type-A receptor 32.7.10.10.459
3n83ADPAldehyde dehydrogenase, mitochondrial1.2.1.30.458
2i3gNAPN-acetyl-gamma-glutamyl-phosphate reductase1.2.1.380.457
2y1oT26UDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.457
3stv3HOMethylketone synthase I/0.457
4ryvZEAProtein LlR18A/0.457
2onmADPAldehyde dehydrogenase, mitochondrial1.2.1.30.456
4ia7BIVVitamin D3 receptor A/0.456
3cukFADD-amino-acid oxidase1.4.3.30.455
3slkNDPPolyketide synthase extender module 2/0.455
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.455
4r81FMNPredicted NADH dehydrogenase/0.455
1o02NADAldehyde dehydrogenase, mitochondrial1.2.1.30.454
1zthADPRIO-type serine/threonine-protein kinase Rio12.7.11.10.454
2ftoCB3Thymidylate synthase/0.454
2jn3JN3Fatty acid-binding protein, liver/0.454
4fr8NADAldehyde dehydrogenase, mitochondrial1.2.1.30.454
1bi9NADRetinal dehydrogenase 2/0.453
1blzACVIsopenicillin N synthase1.21.3.10.453
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.453
1dxqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.453
1h69FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.453
1p0hACOMycothiol acetyltransferase2.3.1.1890.452
2j6lNAIAlpha-aminoadipic semialdehyde dehydrogenase1.2.1.310.452
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.452
3up3XCAaceDAF-12/0.452
4bb6HD1Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.452
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.452
4i8qNADPutative betaine aldehyde dehyrogenase/0.452
4ii5ADPCyclin-dependent kinase 22.7.11.220.452
1lquNDPNADPH-ferredoxin reductase FprA1.18.1.20.451
2rghFADAlpha-Glycerophosphate Oxidase/0.451
3iwjNADAminoaldehyde dehydrogenase/0.451
3p3c3P3UDP-3-O-acyl-N-acetylglucosamine deacetylase/0.451
1fxsNAPGDP-L-fucose synthase/0.450
1m13HYFNuclear receptor subfamily 1 group I member 2/0.450
1nzxNADAldehyde dehydrogenase, mitochondrial1.2.1.30.450
2c27ACOMycothiol acetyltransferase2.3.1.1890.450
2j3jHC4NADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.450
3jskAHZThiamine thiazole synthase/0.450
3tqhNDPQuinone oxidoreductase/0.450
4xnw2IDP2Y purinoceptor 1/0.450
1uxnNAPNAD(P)-dependent glyceraldehyde-3-phosphate dehydrogenase/0.449
2bhpNAD1-pyrroline-5-carboxylate dehydrogenase/0.449
4m6l21VDihydrofolate reductase1.5.1.30.449
4m87NADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.449
5koiNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.449
1nzfUPGDNA beta-glucosyltransferase/0.448
1pn3TYDdTDP-epi-vancosaminyltransferase2.4.1.3110.448
1t0lNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.448
1y60H4M5,6,7,8-tetrahydromethanopterin hydro-lyase4.2.1.1470.448
2fy4COACholine O-acetyltransferase2.3.1.60.448
2y6fM9FIsopenicillin N synthase1.21.3.10.448
3ukoNADAlcohol dehydrogenase class-3/0.448
3zkyWT4Isopenicillin N synthase1.21.3.10.448
4dlbNADS-(hydroxymethyl)glutathione dehydrogenase/0.448
4ku5DCC3-oxoacyl-[ACP] synthase III/0.448
1r35I58Nitric oxide synthase, inducible1.14.13.390.447
2harOCCVitamin D3 receptor/0.447
4hfr14MCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.447
3inmNDPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.446
3w5q3KLVitamin D3 receptor/0.446
4jlk1NODeoxycytidine kinase2.7.1.740.446
2w98P1ZProstaglandin reductase 21.3.1.480.445
2y6o1N1Ephrin type-A receptor 42.7.10.10.445
4bcrWY1Peroxisome proliferator-activated receptor alpha/0.445
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.444
2w2lNADD-mandelate dehydrogenase/0.444
2ww4ADP4-diphosphocytidyl-2-C-methyl-D-erythritol kinase2.7.1.1480.444
4fc7NAPPeroxisomal 2,4-dienoyl-CoA reductase1.3.1.340.444
5kj6PFBAlcohol dehydrogenase E chain1.1.1.10.444
5kjcPFBAlcohol dehydrogenase E chain1.1.1.10.444
1ie8KH1Vitamin D3 receptor/0.443
1rfvADPPyridoxal kinase2.7.1.350.443
2y5s78HDihydropteroate synthase/0.443
4b8zNAPGDP-L-fucose synthase1.1.1.2710.443
4eqgA5AHistidine triad nucleotide-binding protein 130.443
5dqrFAD7-hydroxymethyl chlorophyll a reductase, chloroplastic1.17.7.20.443
1ad3NADAldehyde dehydrogenase, dimeric NADP-preferring/0.442
1qiqACCIsopenicillin N synthase1.21.3.10.442
2vbpVB1Isopenicillin N synthase1.21.3.10.442
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.442
3a783EVVitamin D3 receptor/0.442
3b70NAPEnoyl reductase LovC10.442
3gobHXXDdmC/0.442
3il1B5DGlutamate receptor 2/0.442
3sz0FADSulfide-quinone reductase/0.442
4fj2NAP17beta-hydroxysteroid dehydrogenase/0.442
4yduADPtRNA N6-adenosine threonylcarbamoyltransferase/0.442
1culFOKAdenylate cyclase type 2/0.441
1culFOKAdenylate cyclase type 5/0.441
1gqtACPRibokinase/0.441
1xkvATPPhosphoenolpyruvate carboxykinase (ATP)/0.441
2y37A54Nitric oxide synthase, inducible1.14.13.390.441
3ge1ADPGlycerol kinase/0.441
4phlPILPhosphodiesterase/0.441
2ebaFADPutative glutaryl-CoA dehydrogenase/0.440
3r6sCMPCRP-like cAMP-activated global transcriptional regulator/0.440
3rhdNAPLactaldehyde dehydrogenase1.2.1.220.440
3sf6FDAGlutaryl-CoA dehydrogenase/0.440
3t2kFADSulfide-quinone reductase/0.440
3vjoANPEpidermal growth factor receptor2.7.10.10.440
4bwxAGSPAB-dependent poly(A)-specific ribonuclease subunit pan3/0.440
4hkfACOAlpha-tubulin N-acetyltransferase 1/0.440
4l8u9AZSerum albumin/0.440
4oe2NAD2-aminomuconate 6-semialdehyde dehydrogenase/0.440