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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
1p31 EPU UDP-N-acetylmuramate--L-alanine ligase 6.3.2.8

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1p31 EPUUDP-N-acetylmuramate--L-alanine ligase 6.3.2.8 1.083
1p3d UMAUDP-N-acetylmuramate--L-alanine ligase 6.3.2.8 0.990
2gsd NADFormate dehydrogenase / 0.690
1aa6 MGDFormate dehydrogenase H 1.1.99.33 0.666
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.661
2nad NADFormate dehydrogenase / 0.653