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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
3qbf JHG Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3qbf JHGGag-Pol polyprotein 3.4.23.16 1.481
3qrm NK7Gag-Pol polyprotein 3.4.23.16 1.271
3qrs NK8Gag-Pol polyprotein 3.4.23.16 1.155
3qpj N4IGag-Pol polyprotein 3.4.23.16 1.129
3qro NK9Gag-Pol polyprotein 3.4.23.16 1.050
2pwr G4GGag-Pol polyprotein 3.4.23.16 0.953
2r38 G4GGag-Pol polyprotein 3.4.23.16 0.929
2qnn QN1Gag-Pol polyprotein 3.4.23.16 0.897
2pwc G3GGag-Pol polyprotein 3.4.23.16 0.882
2pqz G0GGag-Pol polyprotein 3.4.23.16 0.875
2r3w G3GGag-Pol polyprotein 3.4.23.16 0.856
2r43 G3GGag-Pol polyprotein 3.4.23.16 0.852
3ckt YDPGag-Pol polyprotein 3.4.23.16 0.850
2qnp QN2Gag-Pol polyprotein 3.4.23.16 0.847
2r3t G4GGag-Pol polyprotein 3.4.23.16 0.846
3qn8 NI7Gag-Pol polyprotein 3.4.23.16 0.803
3qp0 NI8Gag-Pol polyprotein 3.4.23.16 0.802
4gb2 0LQGag-Pol polyprotein 2.7.7.49 0.798
2qci 065Gag-Pol polyprotein 3.4.23.16 0.779
1odw 0E8Gag-Pol polyprotein 3.4.23.16 0.741
1odx 0E8Gag-Pol polyprotein 3.4.23.16 0.740
2i4v DJRV-1 protease / 0.733
1zsf 0ZSGag-Pol polyprotein 3.4.23.16 0.719
1kzk JE2Gag-Pol polyprotein 3.4.23.16 0.714
1ebz BECGag-Pol polyprotein 3.4.23.16 0.709
3nu6 478Gag-Pol polyprotein 3.4.23.16 0.706
2qnq QN3Gag-Pol polyprotein 3.4.23.16 0.702
4dqb 017Gag-Pol polyprotein / 0.701
4dqf 017Gag-Pol polyprotein / 0.694
1wbm BLLPol protein / 0.688
3bgb LJGGag-Pol polyprotein 3.4.23.16 0.686
3o9c K20Pol polyprotein / 0.685
3qih NI7Gag-Pol polyprotein 3.4.23.16 0.684
3ekp 478Gag-Pol polyprotein 3.4.23.16 0.682
1ec0 BEDGag-Pol polyprotein 3.4.23.16 0.678
1t7k BH0Gag-Pol polyprotein 3.4.23.16 0.678
3bhe BZNGag-Pol polyprotein 3.4.23.16 0.677
4kb9 G79Protease / 0.674
1bv7 XV6Gag-Pol polyprotein 3.4.23.16 0.670
3o9g F53Gag-Pol polyprotein / 0.666
2cej 1AHPol protein / 0.665
1g35 AHFGag-Pol polyprotein 3.4.23.16 0.658
2psu MUUProtease / 0.656
1npv L27Gag-Pol polyprotein 3.4.23.16 0.653
4ag8 AXIVascular endothelial growth factor receptor 2 2.7.10.1 0.653
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.652
2i4u DJRProtease / 0.650