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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
4dne DTB Streptavidin

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4dne DTBStreptavidin / 1.033
2izh BTNStreptavidin / 0.977
2izf BTNStreptavidin / 0.975
2y3f BTNStreptavidin / 0.974
2izi BTNStreptavidin / 0.972
1mk5 BTNStreptavidin / 0.956
2izg BTNStreptavidin / 0.949
2rte BTNStreptavidin / 0.949
3wyq BTNStreptavidin / 0.949
3ry2 BTNStreptavidin / 0.948
1nqm BTNStreptavidin / 0.947
2rtg BTNStreptavidin / 0.942
2rtd BTNStreptavidin / 0.941
2rtf BTNStreptavidin / 0.941
3wyp BSOStreptavidin / 0.935
4gda BTNStreptavidin / 0.934
3rdq DTBStreptavidin / 0.929
1n9m BTNStreptavidin / 0.924
2izj BTNStreptavidin / 0.919
1i9h BNIStreptavidin / 0.915
1n43 BTNStreptavidin / 0.911
2zsc BTNTamavidin2 / 0.911
1swe BTNStreptavidin / 0.910
1df8 BTNStreptavidin / 0.905
1luq BTNStreptavidin / 0.904
3rdo BTNStreptavidin / 0.903
3wzn BTNStreptavidin / 0.903
4gd9 BTNStreptavidin / 0.903
2uyw BTNAvd protein / 0.902
1lcw SHMStreptavidin / 0.895
4yvb BTNStreptavidin / 0.889
2izl IMIStreptavidin / 0.875
1y52 BTNAvidin-related protein 4/5 / 0.867
1ndj BTNStreptavidin / 0.866
4bcs BTNAvidin-related protein 4/5 / 0.865
1stp BTNStreptavidin / 0.863
2fhn BNIAvidin-related protein 4/5 / 0.863
1swg BTNStreptavidin / 0.862
1rxj BNIStreptavidin / 0.861
4bx7 B4FStreptavidin / 0.855
1swt BTNStreptavidin / 0.851
2fhl BNIAvidin-related protein 4/5 / 0.850
1nc9 IMIStreptavidin / 0.840
1mep BTNStreptavidin / 0.839
2rto IMIStreptavidin / 0.839
2rtp IMIStreptavidin / 0.833
3ew2 BTNHypothetical conserved protein / 0.822
2rtr IMIStreptavidin / 0.813
4z28 BTNHoefavidin / 0.811
1swn BTNStreptavidin / 0.807
1swr BTNStreptavidin / 0.805
2c4i BTNAvidin / 0.805
2rtq IMIStreptavidin / 0.802
1swp BTNStreptavidin / 0.801
1lcz BH7Streptavidin / 0.788
4bj8 BTNAvidin / 0.785
2uz2 BTNAvd protein / 0.772
1rxh BNIStreptavidin / 0.764
1swp BTQStreptavidin / 0.752
3vgw NVZAvidin / 0.744
1swd BTNStreptavidin / 0.739
2rtm IMIStreptavidin / 0.728
3vhi VHIAvidin / 0.725
1ij8 BNIAvidin / 0.715
2rtn IMIStreptavidin / 0.714
3t2w BTNAvidin/streptavidin / 0.701
4ggz BTNBll1558 protein / 0.674
4a32 MYAGlycylpeptide N-tetradecanoyltransferase / 0.664
3vhm NPKAvidin / 0.663
1ldq SHMAvidin / 0.662
2rtl IMIStreptavidin / 0.661
5a28 MYAGlycylpeptide N-tetradecanoyltransferase / 0.660
4a30 MYAGlycylpeptide N-tetradecanoyltransferase / 0.654
2rtk GLLStreptavidin / 0.652
5ag5 MYAGlycylpeptide N-tetradecanoyltransferase / 0.650