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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
2cvqNDPMalate dehydrogenase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2cvqNDPMalate dehydrogenase/1.000
1y7tNDPMalate dehydrogenase/0.659
1bdmNAXMalate dehydrogenase/0.574
1bmdNADMalate dehydrogenase/0.569
4uunNAIL-lactate dehydrogenase/0.569
1wziNDPMalate dehydrogenase/0.545
1b8uNADMalate dehydrogenase/0.527
1wzeNADMalate dehydrogenase/0.525
1b8vNADMalate dehydrogenase/0.522
4i8x6P3L-lactate dehydrogenase A chain1.1.1.270.515
3h3fNAIL-lactate dehydrogenase A chain1.1.1.270.503
1llqNADNAD-dependent malic enzyme, mitochondrial1.1.1.380.496
4l4sNAIL-lactate dehydrogenase A chain1.1.1.270.483
4i1iNADMalate dehydrogenase/0.481
1rfvADPPyridoxal kinase2.7.1.350.476
4i9n1E5L-lactate dehydrogenase A chain1.1.1.270.468
1o0sNAINAD-dependent malic enzyme, mitochondrial1.1.1.380.463
1hygNAPL-2-hydroxycarboxylate dehydrogenase (NAD(P)(+))/0.459
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.458
2aa3AP0L-lactate dehydrogenase/0.458
4rlsNAIL-lactate dehydrogenase A chain1.1.1.270.457
1tehNADAlcohol dehydrogenase class-31.1.1.10.455
3wswNADL-lactate dehydrogenase/0.455
1ur5NADMalate dehydrogenase/0.454
2ldbNADL-lactate dehydrogenase1.1.1.270.454
2ok7FADFerredoxin--NADP reductase, apicoplast/0.454
3fpzAHZThiamine thiazole synthase/0.453
3gvhNADMalate dehydrogenase/0.451
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.448
2ebaFADPutative glutaryl-CoA dehydrogenase/0.448
2g8yNADHydroxycarboxylate dehydrogenase B/0.448
2ix5FADAcyl-coenzyme A oxidase 4, peroxisomal1.3.3.60.448
3lqfNADGalactitol dehydrogenase/0.448
1p0hACOMycothiol acetyltransferase2.3.1.1890.447
3gfbNADL-threonine 3-dehydrogenase/0.447
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.443
5adhAPRAlcohol dehydrogenase E chain1.1.1.10.442
1adfTADAlcohol dehydrogenase E chain1.1.1.10.441
3keuATPPyridoxal kinase2.7.1.350.441
4ejmNAPPutative zinc-binding dehydrogenase/0.441
4r81FMNPredicted NADH dehydrogenase/0.441
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.441
1blzACVIsopenicillin N synthase1.21.3.10.440
1egeFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.440
4cdmFADDeoxyribodipyrimidine photolyase/0.440