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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
1ndj BTN Streptavidin

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1ndj BTNStreptavidin / 1.081
3wyp BSOStreptavidin / 0.960
3ry2 BTNStreptavidin / 0.950
1df8 BTNStreptavidin / 0.938
1n43 BTNStreptavidin / 0.928
2izf BTNStreptavidin / 0.925
1mk5 BTNStreptavidin / 0.918
2izh BTNStreptavidin / 0.910
2izi BTNStreptavidin / 0.907
1n9m BTNStreptavidin / 0.906
3wyq BTNStreptavidin / 0.906
2izj BTNStreptavidin / 0.905
4bx7 B4FStreptavidin / 0.900
2y3f BTNStreptavidin / 0.895
2rtg BTNStreptavidin / 0.894
2zsc BTNTamavidin2 / 0.894
1luq BTNStreptavidin / 0.891
3rdq DTBStreptavidin / 0.889
4gda BTNStreptavidin / 0.889
4gd9 BTNStreptavidin / 0.885
2izg BTNStreptavidin / 0.881
2rtd BTNStreptavidin / 0.877
2rtf BTNStreptavidin / 0.873
1i9h BNIStreptavidin / 0.869
2rte BTNStreptavidin / 0.868
4yvb BTNStreptavidin / 0.867
4dne DTBStreptavidin / 0.866
3wzn BTNStreptavidin / 0.865
1swg BTNStreptavidin / 0.864
1lcz BH7Streptavidin / 0.857
1nc9 IMIStreptavidin / 0.857
2rtm IMIStreptavidin / 0.854
1swe BTNStreptavidin / 0.851
2rtq IMIStreptavidin / 0.851
1rxj BNIStreptavidin / 0.848
2izl IMIStreptavidin / 0.847
4z28 BTNHoefavidin / 0.844
3rdo BTNStreptavidin / 0.842
2rtp IMIStreptavidin / 0.833
1lcw SHMStreptavidin / 0.830
1stp BTNStreptavidin / 0.828
1swt BTNStreptavidin / 0.821
2rtr IMIStreptavidin / 0.819
1rxh BNIStreptavidin / 0.791
1swn BTNStreptavidin / 0.789
1swp BTQStreptavidin / 0.787
2uyw BTNAvd protein / 0.786
1swp BTNStreptavidin / 0.780
1y52 BTNAvidin-related protein 4/5 / 0.780
2fhl BNIAvidin-related protein 4/5 / 0.778
4bj8 BTNAvidin / 0.772
1swr BTNStreptavidin / 0.769
4bcs BTNAvidin-related protein 4/5 / 0.766
1nqm BTNStreptavidin / 0.756
3t2w BTNAvidin/streptavidin / 0.752
1mep BTNStreptavidin / 0.733
4ggz BTNBll1558 protein / 0.728
3vgw NVZAvidin / 0.716
3vhi VHIAvidin / 0.715
1swd BTNStreptavidin / 0.707
2c4i BTNAvidin / 0.707
2rtl IMIStreptavidin / 0.706
3ew2 BTNHypothetical conserved protein / 0.703
2avi BTNAvidin / 0.687
2rtn IMIStreptavidin / 0.672
4dve BTNBiotin transporter BioY / 0.663
1ij8 BNIAvidin / 0.661
2uz2 BTNAvd protein / 0.660