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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
3k2x I5A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3k2x I5A2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.827
3ke1 8292-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.742
4c8g C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.739
3f0f C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.723
3p0z CTN2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.723
3f0g C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.713
3q8h AO92-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.713
3iew CDP2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.708
3t80 CTN2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12 0.702
3iew CTP2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.695
4c8e C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.680
1iv2 CDP2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12 0.674
1iv4 C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12 0.667
2amt 1AA2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12 0.664