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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
1gx1 CDP 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1gx1 CDP2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12 0.838
1iv2 CDP2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12 0.806
3f0g C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.755
1iv4 C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12 0.754
4c8g C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.749
2amt 1AA2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12 0.743
3iew CDP2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.740
1h47 C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12 0.733
3iew CTP2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.717
4c8e C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.716
3f0f C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.712
3ke1 8292-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.709
1h48 C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12 0.671
3fgo CZASarcoplasmic/endoplasmic reticulum calcium ATPase 1 3.6.3.8 0.664
1tg5 6454-hydroxyphenylpyruvate dioxygenase 1.13.11.27 0.660
2f0y 3MNProtein farnesyltransferase subunit beta 2.5.1.58 0.660
3k14 5352-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.660
3ksq Z96Protein farnesyltransferase subunit beta 2.5.1.58 0.660
3o3j BB4Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 0.660
3pz3 PZ3Geranylgeranyl transferase type-2 subunit beta 2.5.1.60 0.660
3pz4 3PZProtein farnesyltransferase subunit beta 2.5.1.58 0.660
3sfx JANUncharacterized protein / 0.660
3znr NU9Histone deacetylase 7 3.5.1.98 0.660
4gtp 7TPProtein farnesyltransferase subunit beta 2.5.1.58 0.660
4lnb ED5CaaX farnesyltransferase beta subunit Ram1 / 0.660
4lng JANCaaX farnesyltransferase beta subunit Ram1 / 0.660
5kcp PFBAlcohol dehydrogenase E chain 1.1.1.1 0.660
1tfz 8694-hydroxyphenylpyruvate dioxygenase 1.13.11.27 0.659
3t80 CTN2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 4.6.1.12 0.659
5cto NTD4-hydroxyphenylpyruvate dioxygenase 1.13.11.27 0.658
1pl6 572Sorbitol dehydrogenase 1.1.1.14 0.657
1t47 NTD4-hydroxyphenylpyruvate dioxygenase 1.13.11.27 0.657
2y6d TQJMatrilysin 3.4.24.23 0.654