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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
2vq3 NAP Metalloreductase STEAP3

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2vq3 NAPMetalloreductase STEAP3 / 1.325
2yjz NAPMetalloreductase STEAP4 1.16.1 0.782
3mvq NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.741
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.738
3t4e NADQuinate/shikimate dehydrogenase / 0.725
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.711
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.701
5eio NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.701
5ein NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.698
1e5q NDPSaccharopine dehydrogenase [NADP(+), L-glutamate-forming] 1.5.1.10 0.694
1npd NADQuinate/shikimate dehydrogenase / 0.694
3tnl NADShikimate dehydrogenase (NADP(+)) / 0.694
5doz NDPJamJ / 0.694
1vi2 NADQuinate/shikimate dehydrogenase / 0.693
1h6d NDPGlucose--fructose oxidoreductase 1.1.99.28 0.692
3phi NDPShikimate dehydrogenase (NADP(+)) / 0.690
3zhb NAPPutative dehydrogenase / 0.686
3tri NAPPyrroline-5-carboxylate reductase / 0.683
5aq1 NDPGlucose-6-phosphate 1-dehydrogenase / 0.683
1gq2 NAPNADP-dependent malic enzyme 1.1.1.40 0.680
4jbi NDPAlcohol dehydrogenase (Zinc) / 0.680
1wp4 NDP3-hydroxyisobutyrate dehydrogenase / 0.677
1llq NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.674
1zh8 NAPUncharacterized protein / 0.672
3toz NADShikimate dehydrogenase (NADP(+)) / 0.671
4xyb NDPFormate dehydrogenase / 0.670
1qr6 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.669
1h6b NDPGlucose--fructose oxidoreductase 1.1.99.28 0.667
1h6c NDPGlucose--fructose oxidoreductase 1.1.99.28 0.667
1do8 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.666
1nyt NAPShikimate dehydrogenase (NADP(+)) / 0.666
4xgi NADGlutamate dehydrogenase / 0.666
3anm NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.664
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.663
2cvz NDP3-hydroxyisobutyrate dehydrogenase / 0.663
2gcg NDPGlyoxylate reductase/hydroxypyruvate reductase 1.1.1.79 0.663
2rcy NAPPyrroline-5-carboxylate reductase / 0.663
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.662
5a03 NDPGlucose-fructose oxidoreductase / 0.662
5a02 NAPGlucose-fructose oxidoreductase / 0.661
3l77 NJPShort-chain alcohol dehydrogenase / 0.660
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.659
4bkq NAIEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.659
5a05 NDPGlucose-fructose oxidoreductase / 0.659
3baz NAPHydroxyphenylpyruvate reductase 1.1.1.237 0.656
5ijz NAPNADP-specific glutamate dehydrogenase 1.4.1.4 0.655
3b20 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.654
3hwr NDP2-dehydropantoate 2-reductase / 0.654
5a04 NDPGlucose-fructose oxidoreductase / 0.654
2ph5 NADHomospermidine synthase / 0.653
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.653
4oaq NDPR-specific carbonyl reductase / 0.652
3rbv NAPSugar 3-ketoreductase / 0.651
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.651
4y0k NAPAntE / 0.650