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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
3bxs DRS Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3bxs DRSGag-Pol polyprotein 3.4.23.16 0.930
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.789
3bxr DRRGag-Pol polyprotein 3.4.23.16 0.787
3eky DR7Gag-Pol polyprotein 3.4.23.16 0.764
3kfr 3TLGag-Pol polyprotein / 0.760
1d4l PI9Gag-Pol polyprotein 3.4.23.16 0.750
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.744
4e5i 0N9Polymerase acidic protein / 0.744
2cen 4AHProtease / 0.737
3tof 076Gag-Pol polyprotein 2.7.7.49 0.735
3el1 DR7Gag-Pol polyprotein 3.4.23.16 0.731
3sa9 A68Protease / 0.731
3toh 079Gag-Pol polyprotein 2.7.7.49 0.726
3ekw DR7Gag-Pol polyprotein 3.4.23.16 0.724
3sa3 23XProtease / 0.724
3kf0 3TLGag-Pol polyprotein / 0.722
2q54 MU1Protease / 0.720
3ndw RITGag-Pol polyprotein 3.4.23.16 0.720
3ndx RITGag-Pol polyprotein 3.4.23.16 0.719
1ida 0POGag-Pol polyprotein 3.4.23.47 0.717
2hs2 017Protease / 0.715
1b6k PI5Gag-Pol polyprotein 3.4.23.16 0.714
1hvk A79Gag-Pol polyprotein / 0.713
1daz 0Q4Gag-Pol polyprotein 3.4.23.16 0.712
1hvj A78Gag-Pol polyprotein / 0.712
3el9 DR7Gag-Pol polyprotein 3.4.23.16 0.712
3em4 DR7Gag-Pol polyprotein 3.4.23.16 0.710
1sh9 RITGag-Pol polyprotein 3.4.23.16 0.708
2qi5 MZ7Gag-Pol polyprotein / 0.708
3kfs 3TLGag-Pol polyprotein / 0.708
1hih C20Gag-Pol polyprotein / 0.707
3t3c 017Gag-Pol polyprotein 3.4.23.16 0.705
2p3c 3TLProtease / 0.702
3i2l 2NCProtease / 0.702
1ff0 2NCGag-Pol polyprotein 3.4.23.16 0.701
3tog 079Gag-Pol polyprotein 2.7.7.49 0.701
2uy0 HV1Gag-Pol polyprotein 3.4.23.16 0.698
3em6 017Gag-Pol polyprotein 3.4.23.16 0.698
1hvl A76Gag-Pol polyprotein / 0.697
1hvs A77Gag-Pol polyprotein / 0.695
2aqu DR7Gag-Pol polyprotein 3.4.23.16 0.694
3sa7 55AProtease / 0.694
1hii C20Gag-Pol polyprotein / 0.693
1rl8 RITGag-Pol polyprotein 3.4.23.16 0.693
3i6o GR6Gag-Pol polyprotein 3.4.23.16 0.693
1z1h HBBGag-Pol polyprotein 3.4.23.16 0.692
4njt 017Protease / 0.690
1n49 RITGag-Pol polyprotein 3.4.23.16 0.689
2p3d 3TLProtease / 0.689
3s56 ROCProtease / 0.689
1hxw RITGag-Pol polyprotein / 0.688
2cem 2AHPol protein / 0.688
1fgc 2NCGag-Pol polyprotein 3.4.23.16 0.687
3dcr KVSProtease / 0.686
3nwq 2NCGag-Pol polyprotein 3.4.23.16 0.686
1a94 0Q4Gag-Pol polyprotein 3.4.23.16 0.685
3nxe 2NCProtease / 0.685
1fej 2NCGag-Pol polyprotein 3.4.23.16 0.684
2fxe DR7Gag-Pol polyprotein 3.4.23.16 0.684
3o9a K14Pol polyprotein / 0.684
3tlh 3TLGag-Pol polyprotein 3.4.23.16 0.684
2uxz HI1Gag-Pol polyprotein 3.4.23.16 0.683
3oxx DR7Gag-Pol polyprotein 3.4.23.16 0.683
3slz 3TLPutative gag-pro-pol polyprotein / 0.683
4dqf 017Gag-Pol polyprotein / 0.683
3dck KVIProtease / 0.682
1k1u 0Q4Gag-Pol polyprotein 3.4.23.16 0.680
2idw 017Protease / 0.680
1ebk 0Q4Gag-Pol polyprotein 3.4.23.16 0.679
1ffi 2NCGag-Pol polyprotein 3.4.23.16 0.679
2a1e IPFGag-Pol polyprotein 3.4.23.16 0.679
1fg6 2NCGag-Pol polyprotein 3.4.23.16 0.678
1fff 0Q4Gag-Pol polyprotein 3.4.23.16 0.677
2q5k AB1Protease / 0.677
2bpx MK1Gag-Pol polyprotein 3.4.23.16 0.675
3s43 478Protease / 0.675
3s85 LK0Gag-Pol polyprotein / 0.675
1a8g 2Z4Gag-Pol polyprotein 3.4.23.16 0.674
1zsr 0ZTGag-Pol polyprotein 3.4.23.16 0.674
3hzc 2NCProtease / 0.674
1fg8 0Q4Gag-Pol polyprotein 3.4.23.16 0.673
1hvi A77Protease / 0.673
1izi Q50Gag-Pol polyprotein 3.4.23.16 0.673
1k2c 0Q4Gag-Pol polyprotein 3.4.23.16 0.673
3pwm 017Gag-Pol polyprotein 3.4.23.16 0.673
4k4p 3TLGag-Pol polyprotein / 0.673
1a8k 0Q4Gag-Pol polyprotein 3.4.23.16 0.672
2fxd DR7Pol polyprotein / 0.672
2qhy MZ1Gag-Pol polyprotein / 0.672
2wkz 5AHGag-Pol polyprotein / 0.672
3nwx KVSGag-Pol polyprotein 3.4.23.16 0.671
1fmb HYBPol polyprotein / 0.670
1ody LP1Gag-Pol polyprotein 3.4.23.16 0.669
2bbb HH1Gag-Pol polyprotein 3.4.23.16 0.669
2hb3 GRLProtease / 0.669
4a6c QG9Gag-Pol polyprotein 3.4.23.16 0.668
4njs G08Protease / 0.668
3ggx GGXGag-Pol polyprotein / 0.667
3vf5 031Gag-Pol polyprotein 3.4.23.16 0.667
3kfp 3TLGag-Pol polyprotein / 0.666
4a4q UX9Pol protein / 0.666
1vik BAYGag-Pol polyprotein / 0.664
1hxb ROCGag-Pol polyprotein 3.4.23.16 0.663
1sbg IM1Gag-Pol polyprotein / 0.663
1mtr PI6Gag-Pol polyprotein 3.4.23.16 0.662
9hvp 0E9Gag-Pol polyprotein / 0.662
2bb9 AKCGag-Pol polyprotein 3.4.23.16 0.660
2az8 3TLGag-Pol polyprotein 3.4.23.16 0.659
4njv RITProtease / 0.659
1dw6 0Q4Gag-Pol polyprotein 3.4.23.16 0.658
3nyg 2NCGag-Pol polyprotein 3.4.23.16 0.658
4rvj 478Protease / 0.658
1dif A85Gag-Pol polyprotein / 0.657
2b60 RITPol polyprotein / 0.657
1b11 3TLPol polyprotein / 0.656
1mrw K57Gag-Pol polyprotein 3.4.23.16 0.656
2qd7 065Gag-Pol polyprotein 3.4.23.16 0.656
3i7e DJRGag-Pol polyprotein / 0.656
4a6b QG8Gag-Pol polyprotein 3.4.23.16 0.656
3gga GGWGag-Pol polyprotein / 0.655
3zpu M8BGag-Pol polyprotein 3.4.23.16 0.655
2avm 2NCGag-Pol polyprotein 3.4.23.16 0.654
2q63 1UNGag-Pol polyprotein 3.4.23.16 0.654
3jw2 017Gag-Pol polyprotein 3.4.23.16 0.653
1b6l PI4Gag-Pol polyprotein 3.4.23.16 0.652
3ufn ROCGag-Pol polyprotein / 0.652
3d1y ROCGag-Pol polyprotein 3.4.23.16 0.651
2fmb LP1Reverse transcriptase / 0.650
2xyf G40Gag-Pol polyprotein / 0.650