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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
2jd1 NDP 1-deoxy-D-xylulose 5-phosphate reductoisomerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2jd1 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 1.119
2jd0 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.955
2jcx NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.786
3ras NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.772
4gae NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.758
1jvs NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.738
4aic NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.733
2i3g NAPN-acetyl-gamma-glutamyl-phosphate reductase 1.2.1.38 0.721
3a14 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.716
4bkq NAIEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.701
3au8 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.696
1yjq NAP2-dehydropantoate 2-reductase 1.1.1.169 0.690
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.681
3mvq NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.681
2voj NADAlanine dehydrogenase 1.4.1.1 0.677
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.675
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.673
5ein NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.673
3p19 NDPPutative blue fluorescent protein / 0.672
4e5y NDPGDP-L-fucose synthase 1.1.1.271 0.669
1o9b NAIQuinate/shikimate dehydrogenase / 0.668
3q2k NAIProbable oxidoreductase / 0.664
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.664
4j7u NAPSepiapterin reductase 1.1.1.153 0.660
4om8 NAD3-hydroxybutyryl-coA dehydrogenase / 0.660
4bv9 NDPKetimine reductase mu-crystallin 1.5.1.25 0.657
2jcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.656
3zu2 NAIEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.656
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.653
5aq1 NDPGlucose-6-phosphate 1-dehydrogenase / 0.653
2vhx NADAlanine dehydrogenase 1.4.1.1 0.651