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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
1st0 GTG m7GpppX diphosphatase 3.6.1.59

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1st0 GTGm7GpppX diphosphatase 3.6.1.59 1.483
1xmm M7Gm7GpppX diphosphatase 3.6.1.59 0.971
5bv3 M7Gm7GpppX diphosphatase 3.6.1.59 0.860
3n1s 5GPPurine nucleoside phosphoramidase / 0.686
4egu 5GPPutative histidine triad (HIT) protein / 0.686
4eqe KAAHistidine triad nucleotide-binding protein 1 3 0.679
1rzy 5ASHistidine triad nucleotide-binding protein 1 3 0.678
4xba 5GPAprataxin-like protein 3 0.670
2jgb MGTEukaryotic translation initiation factor 4E type 2 / 0.667
4eqg A5AHistidine triad nucleotide-binding protein 1 3 0.663
2ji7 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.653
2j41 5GPGuanylate kinase / 0.651
5i2f BS5Histidine triad nucleotide-binding protein 1 3 0.650