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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
1qbt 146 Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1qbt 146Gag-Pol polyprotein 3.4.23.16 1.641
1bwb 146Gag-Pol polyprotein 3.4.23.16 1.329
1qbr XV6Gag-Pol polyprotein 3.4.23.16 1.176
1bwa XV6Gag-Pol polyprotein 3.4.23.16 1.072
1mes DMPGag-Pol polyprotein 3.4.23.16 0.920
1hvr XK2Gag-Pol polyprotein / 0.905
1hwr 216Gag-Pol polyprotein 3.4.23.16 0.888
1bv7 XV6Gag-Pol polyprotein 3.4.23.16 0.853
1met DMPGag-Pol polyprotein 3.4.23.16 0.851
1hvj A78Gag-Pol polyprotein / 0.773
1ajx AH1Gag-Pol polyprotein 3.4.23.16 0.771
2p3d 3TLProtease / 0.767
3kfs 3TLGag-Pol polyprotein / 0.762
2i4x KGQProtease / 0.746
3nu9 478Gag-Pol polyprotein 3.4.23.16 0.724
3r4b 74TGag-Pol polyprotein / 0.724
3i6o GR6Gag-Pol polyprotein 3.4.23.16 0.723
1bv9 XV6Gag-Pol polyprotein 3.4.23.16 0.722
4heg G52Gag-Pol polyprotein 3.4.23.16 0.721
2q54 MU1Protease / 0.720
1hvh Q82Gag-Pol polyprotein 3.4.23.16 0.716
2hs1 017Protease / 0.713
1a8g 2Z4Gag-Pol polyprotein 3.4.23.16 0.710
1z1r HBHGag-Pol polyprotein 3.4.23.16 0.709
3s85 LK0Gag-Pol polyprotein / 0.709
3pwm 017Gag-Pol polyprotein 3.4.23.16 0.707
3sa3 23XProtease / 0.707
2a4f AAUV-1 protease / 0.706
3jvw DMPGag-Pol polyprotein 3.4.23.16 0.706
4dqc 017Gag-Pol polyprotein / 0.705
4k4p 3TLGag-Pol polyprotein / 0.704
2fxe DR7Gag-Pol polyprotein 3.4.23.16 0.703
4gb2 0LQGag-Pol polyprotein 2.7.7.49 0.703
3oxv 478Gag-Pol polyprotein 3.4.23.16 0.702
3em3 478Gag-Pol polyprotein 3.4.23.16 0.701
3mws 017Pol protein / 0.700
1mer DMQGag-Pol polyprotein 3.4.23.16 0.696
3sa9 A68Protease / 0.696
3oxw 017Gag-Pol polyprotein 3.4.23.16 0.695
1meu DMPGag-Pol polyprotein 3.4.23.16 0.694
3qaa G04Gag-Pol polyprotein 3.4.23.16 0.694
3st5 G89Gag-Pol polyprotein 3.4.23.16 0.694
4dfg 0JVGag-Pol polyprotein 3.4.23.16 0.694
1b6l PI4Gag-Pol polyprotein 3.4.23.16 0.693
2o4p TPVProtease / 0.693
2qhy MZ1Gag-Pol polyprotein / 0.692
3ndu ROCGag-Pol polyprotein 3.4.23.16 0.691
3ndx RITGag-Pol polyprotein 3.4.23.16 0.690
3oy4 017Gag-Pol polyprotein 3.4.23.16 0.690
4kb9 G79Protease / 0.689
2qd8 065Gag-Pol polyprotein 3.4.23.16 0.688
1hvk A79Gag-Pol polyprotein / 0.686
2b60 RITPol polyprotein / 0.685
4djp M73Pol polyprotein / 0.685
2qi5 MZ7Gag-Pol polyprotein / 0.684
4hdp G52Gag-Pol polyprotein 3.4.23.16 0.684
1pro A88Gag-Pol polyprotein / 0.682
1siv PSIGag-Pol polyprotein / 0.681
3o9h K2EGag-Pol polyprotein / 0.681
1ec3 MS3Gag-Pol polyprotein 3.4.23.16 0.680
3kf0 3TLGag-Pol polyprotein / 0.680
3o9b K2APol polyprotein / 0.680
1t7k BH0Gag-Pol polyprotein 3.4.23.16 0.679
3sa8 K83Protease / 0.678
4njs G08Protease / 0.678
2psv MUVProtease / 0.677
1hvs A77Gag-Pol polyprotein / 0.676
4q1x 017Gag-Pol polyprotein 3.4.23.16 0.676
2cem 2AHPol protein / 0.675
2fle AIProtease / 0.675
3ekv 478Gag-Pol polyprotein 3.4.23.16 0.675
2p3a 3TLPol protein / 0.674
3el9 DR7Gag-Pol polyprotein 3.4.23.16 0.673
3kfn 3TLGag-Pol polyprotein / 0.673
1k2b 0Q4Gag-Pol polyprotein 3.4.23.16 0.671
2q5k AB1Protease / 0.671
2qd6 065Gag-Pol polyprotein 3.4.23.16 0.671
3jw2 017Gag-Pol polyprotein 3.4.23.16 0.670
1hvl A76Gag-Pol polyprotein / 0.669
3ok9 G52Gag-Pol polyprotein 3.4.23.16 0.669
4nju TPVProtease / 0.666
1sbg IM1Gag-Pol polyprotein / 0.665
3el1 DR7Gag-Pol polyprotein 3.4.23.16 0.665
4djo MK5Pol polyprotein / 0.665
3ec0 GRLGag-Pol polyprotein 3.4.23.47 0.664
3cyx ROCGag-Pol polyprotein 3.4.23.16 0.663
1hos PHPGag-Pol polyprotein / 0.662
1n49 RITGag-Pol polyprotein 3.4.23.16 0.662
2fdd 385Pol protein / 0.661
1izi Q50Gag-Pol polyprotein 3.4.23.16 0.660
2i4w KGQProtease / 0.660
2pyn 1UNGag-Pol polyprotein 3.4.23.16 0.660
2upj U02Gag-Pol polyprotein 3.4.23.16 0.660
3sab F78Protease / 0.660
2qci 065Gag-Pol polyprotein 3.4.23.16 0.659
3dk1 G05Gag-Pol polyprotein 3.4.23.16 0.659
2qhc AB1Protease / 0.658
3ggu 017Gag-Pol polyprotein 3.4.23.16 0.658
3o9d K19Pol polyprotein / 0.658
1sh9 RITGag-Pol polyprotein 3.4.23.16 0.656
3o9e A60Pol polyprotein / 0.656
3sac AF8Protease / 0.656
1zsr 0ZTGag-Pol polyprotein 3.4.23.16 0.655
3nuo 478Gag-Pol polyprotein 3.4.23.16 0.655
3o99 K13Pol polyprotein / 0.654
3o9i A61Gag-Pol polyprotein / 0.653
1a94 0Q4Gag-Pol polyprotein 3.4.23.16 0.652
1c6z ROCProtease / 0.652
1tcx IM1Gag-Pol polyprotein 3.4.23.16 0.652
2i4d QFIProtease / 0.652
3bxr DRRGag-Pol polyprotein 3.4.23.16 0.652
4njt 017Protease / 0.652
3nu4 478Gag-Pol polyprotein 3.4.23.16 0.651
4hdf G52Gag-Pol polyprotein 3.4.23.16 0.651
4q1y 017Gag-Pol polyprotein 3.4.23.16 0.651
1w5w BE4Gag-Pol polyprotein 3.4.23.16 0.650
2qhz MZ2Gag-Pol polyprotein / 0.650
3eky DR7Gag-Pol polyprotein 3.4.23.16 0.650