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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
2gms P0P Putative pyridoxamine 5-phosphate-dependent dehydrase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2gms P0PPutative pyridoxamine 5-phosphate-dependent dehydrase / 0.810
2gmu PDGPutative pyridoxamine 5-phosphate-dependent dehydrase / 0.773
3tfu PL8Adenosylmethionine-8-amino-7-oxononanoate aminotransferase 2.6.1.62 0.672
4jf1 PLPAcetylornithine/succinyldiaminopimelate aminotransferase 2.6.1.11 0.668
1s07 PLPAdenosylmethionine-8-amino-7-oxononanoate aminotransferase 2.6.1.62 0.667
5k8b PDG8-amino-3,8-dideoxy-alpha-D-manno-octulosonate transaminase / 0.665
2hp2 KE4Glutamate-1-semialdehyde 2,1-aminomutase 5.4.3.8 0.659