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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
3vhh VHH Avidin

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3vhh VHHAvidin / 0.915
1ij8 BNIAvidin / 0.745
2avi BTNAvidin / 0.736
2uz2 BTNAvd protein / 0.729
2rtf BTNStreptavidin / 0.718
2izf BTNStreptavidin / 0.716
1luq BTNStreptavidin / 0.708
4gda BTNStreptavidin / 0.701
3ry2 BTNStreptavidin / 0.700
2izg BTNStreptavidin / 0.693
2rtd BTNStreptavidin / 0.692
2c4i BTNAvidin / 0.691
3ew2 BTNHypothetical conserved protein / 0.691
1lcw SHMStreptavidin / 0.690
2rtg BTNStreptavidin / 0.690
1df8 BTNStreptavidin / 0.684
2zsc BTNTamavidin2 / 0.683
2izj BTNStreptavidin / 0.682
1swt BTNStreptavidin / 0.679
3t2w BTNAvidin/streptavidin / 0.674
1swr BTNStreptavidin / 0.665
1swn BTNStreptavidin / 0.660
2izi BTNStreptavidin / 0.660
3rdo BTNStreptavidin / 0.658
1swp BTNStreptavidin / 0.654