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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
1jvs NDP 1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1jvs NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 1.011
3anm NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.876
1q0q NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.789
3a14 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.771
2jd1 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.738
2jcx NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.737
3ras NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.727
3anl NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.726
5dul NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.726
2jcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.723
4aic NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.712
4gae NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.702
2jd0 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.686
2yut NAPPutative short-chain oxidoreductase / 0.675
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.650