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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
5dul NDP 1-deoxy-D-xylulose 5-phosphate reductoisomerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5dul NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 1.058
3anm NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.827
3anl NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.790
4xq9 NADHomospermidine synthase 2.5.1.44 0.728
1jvs NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.726
1i36 NAPConserved protein / 0.693
5doz NDPJamJ / 0.691
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.690
1q0q NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.686
1yb5 NAPQuinone oxidoreductase 1.6.5.5 0.682
4aic NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.676
4oaq NDPR-specific carbonyl reductase / 0.676
4xrg NADHomospermidine synthase 2.5.1.44 0.676
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.674
1yjq NAP2-dehydropantoate 2-reductase 1.1.1.169 0.673
2v7g NADUrocanate hydratase 4.2.1.49 0.670
4nu6 NADPhosphonate dehydrogenase 1.20.1.1 0.670
4bv9 NDPKetimine reductase mu-crystallin 1.5.1.25 0.668
2jcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.667
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.665
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.665
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.664
3a14 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.661
4k28 NADShikimate dehydrogenase family protein / 0.658
4kug NAD3-hydroxybutyryl-CoA dehydrogenase / 0.655
2cvz NDP3-hydroxyisobutyrate dehydrogenase / 0.654
1wp4 NDP3-hydroxyisobutyrate dehydrogenase / 0.652
1yqd NAPSinapyl alcohol dehydrogenase / 0.651
2jcx NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.651
4b7x NAPProbable oxidoreductase / 0.651
3abi NADUncharacterized protein / 0.650
3zhb NAPPutative dehydrogenase / 0.650