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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
3wbb NAP Meso-diaminopimelate D-dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3wbb NAPMeso-diaminopimelate D-dehydrogenase / 1.204
3wbf NAPMeso-diaminopimelate D-dehydrogenase / 0.950
3wyc NAPMeso-diaminopimelate D-dehydrogenase 1.4.1.16 0.836
1dap NDPMeso-diaminopimelate D-dehydrogenase 1.4.1.16 0.789
4oaq NDPR-specific carbonyl reductase / 0.716
1p0f NAPNADP-dependent alcohol dehydrogenase 1.1.1.2 0.709
1pjc NADAlanine dehydrogenase / 0.707
3kbo NDPGlyoxylate/hydroxypyruvate reductase A / 0.688
1h6a NDPGlucose--fructose oxidoreductase 1.1.99.28 0.687
1yqd NAPSinapyl alcohol dehydrogenase / 0.687
1q0q NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.683
4ebf NADPhosphonate dehydrogenase 1.20.1.1 0.681
3oet NADErythronate-4-phosphate dehydrogenase / 0.676
1cf2 NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.673
5a02 NAPGlucose-fructose oxidoreductase / 0.672
1o8c NDPProbable acrylyl-CoA reductase AcuI 1.3.1.84 0.669
4jbi NDPAlcohol dehydrogenase (Zinc) / 0.669
2qx7 NAPEugenol synthase 1 1.1.1.318 0.668
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.668
2yjz NAPMetalloreductase STEAP4 1.16.1 0.661
4xrg NADHomospermidine synthase 2.5.1.44 0.661
1i36 NAPConserved protein / 0.660
1yqx NAPSinapyl alcohol dehydrogenase / 0.660
2jcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.660
4n9q FMNFMN-dependent NADH-azoreductase 1 / 0.660
1ofg NDPGlucose--fructose oxidoreductase 1.1.99.28 0.658
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.657
4gi2 NAPCrotonyl-CoA carboxylase/reductase / 0.656
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.656
4gae NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.654
3keq NADRedox-sensing transcriptional repressor Rex / 0.653
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.653
3rbv NAPSugar 3-ketoreductase / 0.651