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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
3wyp BSO Streptavidin

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3wyp BSOStreptavidin / 1.065
3ry2 BTNStreptavidin / 1.034
1mk5 BTNStreptavidin / 1.027
2y3f BTNStreptavidin / 1.015
3wyq BTNStreptavidin / 1.005
4yvb BTNStreptavidin / 0.994
4gda BTNStreptavidin / 0.993
2izh BTNStreptavidin / 0.991
2izf BTNStreptavidin / 0.990
2izj BTNStreptavidin / 0.985
2zsc BTNTamavidin2 / 0.976
2izg BTNStreptavidin / 0.964
4gd9 BTNStreptavidin / 0.964
2izi BTNStreptavidin / 0.962
1luq BTNStreptavidin / 0.960
1ndj BTNStreptavidin / 0.960
2rtg BTNStreptavidin / 0.959
2rte BTNStreptavidin / 0.955
2rtf BTNStreptavidin / 0.954
1n43 BTNStreptavidin / 0.949
1i9h BNIStreptavidin / 0.945
1n9m BTNStreptavidin / 0.944
3wzn BTNStreptavidin / 0.938
1df8 BTNStreptavidin / 0.937
1swe BTNStreptavidin / 0.936
4dne DTBStreptavidin / 0.935
3rdq DTBStreptavidin / 0.929
2rtd BTNStreptavidin / 0.928
1swg BTNStreptavidin / 0.924
3rdo BTNStreptavidin / 0.922
1mep BTNStreptavidin / 0.913
4bx7 B4FStreptavidin / 0.913
1swr BTNStreptavidin / 0.908
1stp BTNStreptavidin / 0.893
1rxj BNIStreptavidin / 0.886
1lcw SHMStreptavidin / 0.883
1lcz BH7Streptavidin / 0.878
1swt BTNStreptavidin / 0.870
2izl IMIStreptavidin / 0.868
2uyw BTNAvd protein / 0.865
4z28 BTNHoefavidin / 0.859
1swp BTQStreptavidin / 0.858
1y52 BTNAvidin-related protein 4/5 / 0.855
2fhl BNIAvidin-related protein 4/5 / 0.853
2fhn BNIAvidin-related protein 4/5 / 0.851
1rxh BNIStreptavidin / 0.841
2rtr IMIStreptavidin / 0.841
4bcs BTNAvidin-related protein 4/5 / 0.841
2rtm IMIStreptavidin / 0.839
1swp BTNStreptavidin / 0.836
2c4i BTNAvidin / 0.833
2rtp IMIStreptavidin / 0.828
2rtq IMIStreptavidin / 0.828
1swn BTNStreptavidin / 0.824
2rto IMIStreptavidin / 0.816
1swd BTNStreptavidin / 0.813
3vgw NVZAvidin / 0.800
3ew2 BTNHypothetical conserved protein / 0.796
4bj8 BTNAvidin / 0.796
1nqm BTNStreptavidin / 0.787
3t2w BTNAvidin/streptavidin / 0.780
1nc9 IMIStreptavidin / 0.775
2uz2 BTNAvd protein / 0.766
3vhi VHIAvidin / 0.762
4ggz BTNBll1558 protein / 0.735
2rtl IMIStreptavidin / 0.708
1avd BTNAvidin / 0.687
2avi BTNAvidin / 0.682
3vhm NPKAvidin / 0.667
2rtn IMIStreptavidin / 0.659
1ij8 BNIAvidin / 0.656
2nmt NHMGlycylpeptide N-tetradecanoyltransferase 2.3.1.97 0.654