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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
1odw 0E8 Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1odw 0E8Gag-Pol polyprotein 3.4.23.16 1.408
1odx 0E8Gag-Pol polyprotein 3.4.23.16 1.003
1b6k PI5Gag-Pol polyprotein 3.4.23.16 0.843
1mtr PI6Gag-Pol polyprotein 3.4.23.16 0.828
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.789
1iiq 0ZRGag-Pol polyprotein 3.4.23.16 0.784
3ndx RITGag-Pol polyprotein 3.4.23.16 0.780
4gb2 0LQGag-Pol polyprotein 2.7.7.49 0.780
2qnn QN1Gag-Pol polyprotein 3.4.23.16 0.767
3ndw RITGag-Pol polyprotein 3.4.23.16 0.762
1hvj A78Gag-Pol polyprotein / 0.761
2pqz G0GGag-Pol polyprotein 3.4.23.16 0.759
1hxw RITGag-Pol polyprotein / 0.752
1b6m PI6Gag-Pol polyprotein 3.4.23.16 0.741
2rkg AB1Pol protein / 0.741
3qbf JHGGag-Pol polyprotein 3.4.23.16 0.741
3qrm NK7Gag-Pol polyprotein 3.4.23.16 0.741
3ckt YDPGag-Pol polyprotein 3.4.23.16 0.735
1rl8 RITGag-Pol polyprotein 3.4.23.16 0.734
1hvs A77Gag-Pol polyprotein / 0.733
2rkf AB1Pol protein / 0.733
4heg G52Gag-Pol polyprotein 3.4.23.16 0.731
3qn8 NI7Gag-Pol polyprotein 3.4.23.16 0.729
2qnp QN2Gag-Pol polyprotein 3.4.23.16 0.728
1sbg IM1Gag-Pol polyprotein / 0.725
3qrs NK8Gag-Pol polyprotein 3.4.23.16 0.720
2qnq QN3Gag-Pol polyprotein 3.4.23.16 0.715
1m0b 0ZQGag-Pol polyprotein 3.4.23.16 0.714
3mws 017Pol protein / 0.713
2q5k AB1Protease / 0.709
1hpx KNIGag-Pol polyprotein / 0.705
1msn JE2Gag-Pol polyprotein 3.4.23.16 0.701
2bpz 3INGag-Pol polyprotein 3.4.23.16 0.701
3qih NI7Gag-Pol polyprotein 3.4.23.16 0.700
3hzc 2NCProtease / 0.699
2f80 017Gag-Pol polyprotein 3.4.23.16 0.697
3lix E17Protease / 0.695
2avv MK1Gag-Pol polyprotein 3.4.23.16 0.694
3ekx 1UNGag-Pol polyprotein 3.4.23.16 0.693
1zsr 0ZTGag-Pol polyprotein 3.4.23.16 0.692
3i2l 2NCProtease / 0.692
1bwb 146Gag-Pol polyprotein 3.4.23.16 0.691
3el1 DR7Gag-Pol polyprotein 3.4.23.16 0.690
4k4p 3TLGag-Pol polyprotein / 0.690
1pro A88Gag-Pol polyprotein / 0.686
3o9h K2EGag-Pol polyprotein / 0.686
3qp0 NI8Gag-Pol polyprotein 3.4.23.16 0.686
2qi5 MZ7Gag-Pol polyprotein / 0.684
1izh Q50Protease / 0.683
2q55 MU0Protease / 0.683
1t7j 478Gag-Pol polyprotein 3.4.23.16 0.680
3nu6 478Gag-Pol polyprotein 3.4.23.16 0.679
1hvl A76Gag-Pol polyprotein / 0.678
3cyw 017Gag-Pol polyprotein 3.4.23.16 0.678
1bdr IM1Gag-Pol polyprotein 3.4.23.16 0.677
1hsg MK1Gag-Pol polyprotein / 0.677
2qi4 MZ6Gag-Pol polyprotein / 0.676
4a6b QG8Gag-Pol polyprotein 3.4.23.16 0.676
2pk5 075Protease / 0.675
2i4v DJRV-1 protease / 0.674
3ekp 478Gag-Pol polyprotein 3.4.23.16 0.674
9hvp 0E9Gag-Pol polyprotein / 0.674
3bxr DRRGag-Pol polyprotein 3.4.23.16 0.672
3o9c K20Pol polyprotein / 0.672
3dcr KVSProtease / 0.671
2b7z MK1Gag-Pol polyprotein / 0.670
3nyg 2NCGag-Pol polyprotein 3.4.23.16 0.670
3oqf S51Renin 3.4.23.15 0.670
3nu9 478Gag-Pol polyprotein 3.4.23.16 0.668
3nuj 478Gag-Pol polyprotein 3.4.23.16 0.668
1hvr XK2Gag-Pol polyprotein / 0.667
3o9a K14Pol polyprotein / 0.666
4dqb 017Gag-Pol polyprotein / 0.665
3d1z 017Gag-Pol polyprotein 3.4.23.16 0.664
3zps EQMGag-Pol polyprotein 3.4.23.16 0.664
2r3w G3GGag-Pol polyprotein 3.4.23.16 0.663
1ec0 BEDGag-Pol polyprotein 3.4.23.16 0.662
1hvk A79Gag-Pol polyprotein / 0.662
3fx5 KNIGag-Pol polyprotein 3.4.23.16 0.662
3zpt M8YGag-Pol polyprotein 3.4.23.16 0.662
1tcx IM1Gag-Pol polyprotein 3.4.23.16 0.661
2avm 2NCGag-Pol polyprotein 3.4.23.16 0.661
2bbb HH1Gag-Pol polyprotein 3.4.23.16 0.661
3i7e DJRGag-Pol polyprotein / 0.661
3dk1 G05Gag-Pol polyprotein 3.4.23.16 0.660
1c6x 3INProtease / 0.659
1d4k PI8Gag-Pol polyprotein 3.4.23.16 0.659
2aqu DR7Gag-Pol polyprotein 3.4.23.16 0.659
2qak 1UNGag-Pol polyprotein 3.4.23.16 0.658
3oxv 478Gag-Pol polyprotein 3.4.23.16 0.658
3s54 017Protease / 0.656
3s85 LK0Gag-Pol polyprotein / 0.656
2i4u DJRProtease / 0.655
3em4 DR7Gag-Pol polyprotein 3.4.23.16 0.655
1ebw BEIGag-Pol polyprotein 3.4.23.16 0.654
3cyx ROCGag-Pol polyprotein 3.4.23.16 0.654
3o9g F53Gag-Pol polyprotein / 0.654
2bpw 1INGag-Pol polyprotein 3.4.23.16 0.653
3kfs 3TLGag-Pol polyprotein / 0.653
3lin E13Protease / 0.653
3zpu M8BGag-Pol polyprotein 3.4.23.16 0.653
3el4 ROCGag-Pol polyprotein 3.4.23.16 0.651
3o9f K2DGag-Pol polyprotein / 0.651
4kb9 G79Protease / 0.651
1c6z ROCProtease / 0.650
4dqh 017Gag-Pol polyprotein / 0.650
4hdf G52Gag-Pol polyprotein 3.4.23.16 0.650