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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
1bwa XV6 Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1bwa XV6Gag-Pol polyprotein 3.4.23.16 1.491
1qbr XV6Gag-Pol polyprotein 3.4.23.16 1.134
1bwb 146Gag-Pol polyprotein 3.4.23.16 1.108
1bv9 XV6Gag-Pol polyprotein 3.4.23.16 1.092
1qbt 146Gag-Pol polyprotein 3.4.23.16 1.072
1mes DMPGag-Pol polyprotein 3.4.23.16 0.892
1meu DMPGag-Pol polyprotein 3.4.23.16 0.892
1qbs DMPGag-Pol polyprotein 3.4.23.16 0.826
1mer DMQGag-Pol polyprotein 3.4.23.16 0.824
1hwr 216Gag-Pol polyprotein 3.4.23.16 0.789
4hdp G52Gag-Pol polyprotein 3.4.23.16 0.757
1qbu 846Gag-Pol polyprotein 3.4.23.16 0.737
3jvw DMPGag-Pol polyprotein 3.4.23.16 0.735
1ajx AH1Gag-Pol polyprotein 3.4.23.16 0.729
4djo MK5Pol polyprotein / 0.729
3i6o GR6Gag-Pol polyprotein 3.4.23.16 0.724
2qi5 MZ7Gag-Pol polyprotein / 0.714
4dqe 017Gag-Pol polyprotein / 0.713
4j54 G52Gag-Pol polyprotein 3.4.23.16 0.709
3r4b 74TGag-Pol polyprotein / 0.707
4njs G08Protease / 0.707
3em6 017Gag-Pol polyprotein 3.4.23.16 0.706
3el1 DR7Gag-Pol polyprotein 3.4.23.16 0.704
2aqu DR7Gag-Pol polyprotein 3.4.23.16 0.700
3ttp 017Gag-Pol polyprotein 3.4.23.16 0.699
4dfg 0JVGag-Pol polyprotein 3.4.23.16 0.699
3o9a K14Pol polyprotein / 0.697
2hs1 017Protease / 0.696
2hb3 GRLProtease / 0.694
3o9c K20Pol polyprotein / 0.694
3o9g F53Gag-Pol polyprotein / 0.694
3t3c 017Gag-Pol polyprotein 3.4.23.16 0.693
4heg G52Gag-Pol polyprotein 3.4.23.16 0.693
3ekt 017Gag-Pol polyprotein 3.4.23.16 0.690
3o9h K2EGag-Pol polyprotein / 0.690
4djp M73Pol polyprotein / 0.688
1z1r HBHGag-Pol polyprotein 3.4.23.16 0.687
4dqc 017Gag-Pol polyprotein / 0.687
2pym 1UNGag-Pol polyprotein 3.4.23.16 0.686
3o9d K19Pol polyprotein / 0.686
1hvs A77Gag-Pol polyprotein / 0.683
3o9f K2DGag-Pol polyprotein / 0.682
3sa8 K83Protease / 0.681
1hvl A76Gag-Pol polyprotein / 0.680
1met DMPGag-Pol polyprotein 3.4.23.16 0.679
1hvr XK2Gag-Pol polyprotein / 0.678
3mxd K53Gag-Pol polyprotein 3.4.23.16 0.678
4dqb 017Gag-Pol polyprotein / 0.678
2a1e IPFGag-Pol polyprotein 3.4.23.16 0.675
3o9b K2APol polyprotein / 0.674
4ye3 G04Gag-Pol polyprotein 3.4.23.16 0.674
1t3r 017Gag-Pol polyprotein 3.4.23.16 0.672
4gb2 0LQGag-Pol polyprotein 2.7.7.49 0.672
3i7e DJRGag-Pol polyprotein / 0.667
3qaa G04Gag-Pol polyprotein 3.4.23.16 0.667
2fxe DR7Gag-Pol polyprotein 3.4.23.16 0.666
2q54 MU1Protease / 0.666
3mxe K54Gag-Pol polyprotein 3.4.23.16 0.666
3em3 478Gag-Pol polyprotein 3.4.23.16 0.665
3o9i A61Gag-Pol polyprotein / 0.665
3sa9 A68Protease / 0.663
4j55 031Gag-Pol polyprotein 3.4.23.16 0.663
1bv7 XV6Gag-Pol polyprotein 3.4.23.16 0.662
2fdd 385Pol protein / 0.662
2qi0 MZ3Gag-Pol polyprotein / 0.662
3eky DR7Gag-Pol polyprotein 3.4.23.16 0.662
2f8g 017Gag-Pol polyprotein 3.4.23.16 0.661
3qn8 NI7Gag-Pol polyprotein 3.4.23.16 0.661
2idw 017Protease / 0.660
2i4x KGQProtease / 0.659
2i4u DJRProtease / 0.657
2pk6 O33V-1 protease / 0.657
3sa3 23XProtease / 0.656
3saa 77FProtease / 0.654
3gi6 D78Gag-Pol polyprotein / 0.653
3o99 K13Pol polyprotein / 0.653
2z4o 065Gag-Pol polyprotein 3.4.23.16 0.651
4q1y 017Gag-Pol polyprotein 3.4.23.16 0.651
3el9 DR7Gag-Pol polyprotein 3.4.23.16 0.650