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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
3ggx GGX Gag-Pol polyprotein

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3ggx GGXGag-Pol polyprotein / 1.420
3kfn 3TLGag-Pol polyprotein / 0.858
3kfs 3TLGag-Pol polyprotein / 0.811
2nmy ROCProtease / 0.791
1hvs A77Gag-Pol polyprotein / 0.789
3dck KVIProtease / 0.787
2q54 MU1Protease / 0.773
3em4 DR7Gag-Pol polyprotein 3.4.23.16 0.770
3cyx ROCGag-Pol polyprotein 3.4.23.16 0.768
4hdp G52Gag-Pol polyprotein 3.4.23.16 0.766
3nxe 2NCProtease / 0.765
1npa 3NHGag-Pol polyprotein 3.4.23.16 0.761
1npw LGZGag-Pol polyprotein 3.4.23.16 0.761
1hvj A78Gag-Pol polyprotein / 0.758
3el9 DR7Gag-Pol polyprotein 3.4.23.16 0.755
3ekw DR7Gag-Pol polyprotein 3.4.23.16 0.753
3kf0 3TLGag-Pol polyprotein / 0.753
3kfr 3TLGag-Pol polyprotein / 0.753
1jld 0PPGag-Pol polyprotein / 0.748
3oxx DR7Gag-Pol polyprotein 3.4.23.16 0.748
4njv RITProtease / 0.748
1ida 0POGag-Pol polyprotein 3.4.23.47 0.746
1tcx IM1Gag-Pol polyprotein 3.4.23.16 0.746
1hos PHPGag-Pol polyprotein / 0.744
1hpx KNIGag-Pol polyprotein / 0.743
1ff0 2NCGag-Pol polyprotein 3.4.23.16 0.742
3dcr KVSProtease / 0.741
2bbb HH1Gag-Pol polyprotein 3.4.23.16 0.740
1fgc 2NCGag-Pol polyprotein 3.4.23.16 0.735
2q5k AB1Protease / 0.733
2xyf G40Gag-Pol polyprotein / 0.733
3nwq 2NCGag-Pol polyprotein 3.4.23.16 0.733
1ivq 0PXGag-Pol polyprotein / 0.732
3ekq ROCGag-Pol polyprotein 3.4.23.16 0.731
2fxe DR7Gag-Pol polyprotein 3.4.23.16 0.729
2rkg AB1Pol protein / 0.729
2wl0 5AHGag-Pol polyprotein / 0.727
3tl9 ROCGag-Pol polyprotein 3.4.23.16 0.725
2nnk ROCProtease / 0.724
3el1 DR7Gag-Pol polyprotein 3.4.23.16 0.724
3slz 3TLPutative gag-pro-pol polyprotein / 0.723
1daz 0Q4Gag-Pol polyprotein 3.4.23.16 0.720
4hdf G52Gag-Pol polyprotein 3.4.23.16 0.720
1ebk 0Q4Gag-Pol polyprotein 3.4.23.16 0.718
2aqu DR7Gag-Pol polyprotein 3.4.23.16 0.716
3mws 017Pol protein / 0.715
3oy4 017Gag-Pol polyprotein 3.4.23.16 0.715
2q55 MU0Protease / 0.712
3pwm 017Gag-Pol polyprotein 3.4.23.16 0.712
4heg G52Gag-Pol polyprotein 3.4.23.16 0.712
1hiv 1ZKGag-Pol polyprotein / 0.711
1bdr IM1Gag-Pol polyprotein 3.4.23.16 0.708
3s85 LK0Gag-Pol polyprotein / 0.708
1sbg IM1Gag-Pol polyprotein / 0.707
3toh 079Gag-Pol polyprotein 2.7.7.49 0.707
1ffi 2NCGag-Pol polyprotein 3.4.23.16 0.706
3tof 076Gag-Pol polyprotein 2.7.7.49 0.706
2fxd DR7Pol polyprotein / 0.703
3nyg 2NCGag-Pol polyprotein 3.4.23.16 0.703
1rl8 RITGag-Pol polyprotein 3.4.23.16 0.700
2psv MUVProtease / 0.699
3sa3 23XProtease / 0.698
1fg8 0Q4Gag-Pol polyprotein 3.4.23.16 0.696
3d1x ROCGag-Pol polyprotein 3.4.23.16 0.695
3sa4 F72Protease / 0.695
3ggu 017Gag-Pol polyprotein 3.4.23.16 0.694
3lzu 017Gag-Pol polyprotein 3.4.23.16 0.694
3o9h K2EGag-Pol polyprotein / 0.694
2z54 AB1Gag-Pol polyprotein 3.4.23.16 0.692
2rkf AB1Pol protein / 0.691
1a8g 2Z4Gag-Pol polyprotein 3.4.23.16 0.690
1hih C20Gag-Pol polyprotein / 0.689
1hii C20Gag-Pol polyprotein / 0.689
3tog 079Gag-Pol polyprotein 2.7.7.49 0.689
3sa9 A68Protease / 0.688
3oxw 017Gag-Pol polyprotein 3.4.23.16 0.687
2fle AIProtease / 0.686
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.685
1bwb 146Gag-Pol polyprotein 3.4.23.16 0.683
3zpt M8YGag-Pol polyprotein 3.4.23.16 0.683
1z1h HBBGag-Pol polyprotein 3.4.23.16 0.682
3t3c 017Gag-Pol polyprotein 3.4.23.16 0.682
2qd8 065Gag-Pol polyprotein 3.4.23.16 0.681
3sa7 55AProtease / 0.681
1hvi A77Protease / 0.680
3el4 ROCGag-Pol polyprotein 3.4.23.16 0.680
3r4b 74TGag-Pol polyprotein / 0.680
2a1e IPFGag-Pol polyprotein 3.4.23.16 0.679
3ucb 017Gag-Pol polyprotein / 0.679
2xye CXGGag-Pol polyprotein / 0.676
3bxr DRRGag-Pol polyprotein 3.4.23.16 0.676
1ebw BEIGag-Pol polyprotein 3.4.23.16 0.675
3st5 G89Gag-Pol polyprotein 3.4.23.16 0.675
1hxb ROCGag-Pol polyprotein 3.4.23.16 0.674
2f8g 017Gag-Pol polyprotein 3.4.23.16 0.674
3ndx RITGag-Pol polyprotein 3.4.23.16 0.674
3pwr ROCGag-Pol polyprotein 3.4.23.16 0.674
3sac AF8Protease / 0.674
1ec3 MS3Gag-Pol polyprotein 3.4.23.16 0.672
2hs1 017Protease / 0.672
2p3c 3TLProtease / 0.672
2qi5 MZ7Gag-Pol polyprotein / 0.671
2wkz 5AHGag-Pol polyprotein / 0.671
3lzv 017Gag-Pol polyprotein 3.4.23.16 0.671
1hvl A76Gag-Pol polyprotein / 0.670
2cen 4AHProtease / 0.670
1mtr PI6Gag-Pol polyprotein 3.4.23.16 0.669
3nwx KVSGag-Pol polyprotein 3.4.23.16 0.669
3sa6 F71Protease / 0.669
1n49 RITGag-Pol polyprotein 3.4.23.16 0.668
3zps EQMGag-Pol polyprotein 3.4.23.16 0.668
3bxs DRSGag-Pol polyprotein 3.4.23.16 0.667
3gga GGWGag-Pol polyprotein / 0.667
2a4f AAUV-1 protease / 0.666
3bva 2NCGag-Pol polyprotein 3.4.23.16 0.666
1ohr 1UNV-1 PROTEASE protein / 0.665
1hxw RITGag-Pol polyprotein / 0.664
1izh Q50Protease / 0.664
3ndt ROCGag-Pol polyprotein 3.4.23.16 0.662
9hvp 0E9Gag-Pol polyprotein / 0.662
1fff 0Q4Gag-Pol polyprotein 3.4.23.16 0.660
1siv PSIGag-Pol polyprotein / 0.660
2nnp ROCProtease / 0.660
3zpu M8BGag-Pol polyprotein 3.4.23.16 0.660
1ody LP1Gag-Pol polyprotein 3.4.23.16 0.658
3lix E17Protease / 0.656
1vij BAYGag-Pol polyprotein / 0.655
3saa 77FProtease / 0.655
3tlh 3TLGag-Pol polyprotein 3.4.23.16 0.655
4dqc 017Gag-Pol polyprotein / 0.655
2aoe 0Q4Gag-Pol polyprotein 3.4.23.16 0.654
2fde 385Gag-Pol polyprotein 3.4.23.16 0.654
3lin E13Protease / 0.653
2qi0 MZ3Gag-Pol polyprotein / 0.652
3ndw RITGag-Pol polyprotein 3.4.23.16 0.652
1a94 0Q4Gag-Pol polyprotein 3.4.23.16 0.650
2b60 RITPol polyprotein / 0.650
3kfp 3TLGag-Pol polyprotein / 0.650