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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
1b6p PI7 Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
1b6p PI7Gag-Pol polyprotein 3.4.23.16 1.488
1b6k PI5Gag-Pol polyprotein 3.4.23.16 1.175
1mtr PI6Gag-Pol polyprotein 3.4.23.16 1.115
1b6m PI6Gag-Pol polyprotein 3.4.23.16 1.073
1iiq 0ZRGag-Pol polyprotein 3.4.23.16 0.982
1eby BEBGag-Pol polyprotein 3.4.23.16 0.879
1a94 0Q4Gag-Pol polyprotein 3.4.23.16 0.875
3bxr DRRGag-Pol polyprotein 3.4.23.16 0.864
1ebw BEIGag-Pol polyprotein 3.4.23.16 0.842
1wbk 568Pol protein / 0.830
1zsr 0ZTGag-Pol polyprotein 3.4.23.16 0.824
1ec3 MS3Gag-Pol polyprotein 3.4.23.16 0.815
2fxe DR7Gag-Pol polyprotein 3.4.23.16 0.811
1daz 0Q4Gag-Pol polyprotein 3.4.23.16 0.803
3i2l 2NCProtease / 0.800
1fff 0Q4Gag-Pol polyprotein 3.4.23.16 0.798
1k2b 0Q4Gag-Pol polyprotein 3.4.23.16 0.797
1dw6 0Q4Gag-Pol polyprotein 3.4.23.16 0.796
1sbg IM1Gag-Pol polyprotein / 0.795
2cen 4AHProtease / 0.793
3bgb LJGGag-Pol polyprotein 3.4.23.16 0.792
3eky DR7Gag-Pol polyprotein 3.4.23.16 0.792
3kfr 3TLGag-Pol polyprotein / 0.792
1odw 0E8Gag-Pol polyprotein 3.4.23.16 0.789
2z54 AB1Gag-Pol polyprotein 3.4.23.16 0.789
3bxs DRSGag-Pol polyprotein 3.4.23.16 0.789
2cem 2AHPol protein / 0.787
1d4i BEGGag-Pol polyprotein 3.4.23.16 0.786
2pk6 O33V-1 protease / 0.785
2avm 2NCGag-Pol polyprotein 3.4.23.16 0.783
1k2c 0Q4Gag-Pol polyprotein 3.4.23.16 0.782
2wkz 5AHGag-Pol polyprotein / 0.781
1z1h HBBGag-Pol polyprotein 3.4.23.16 0.780
2uy0 HV1Gag-Pol polyprotein 3.4.23.16 0.779
3el1 DR7Gag-Pol polyprotein 3.4.23.16 0.776
1k1u 0Q4Gag-Pol polyprotein 3.4.23.16 0.773
3sa7 55AProtease / 0.770
1hvi A77Protease / 0.767
2q55 MU0Protease / 0.763
1fg6 2NCGag-Pol polyprotein 3.4.23.16 0.761
1hvs A77Gag-Pol polyprotein / 0.761
3oxx DR7Gag-Pol polyprotein 3.4.23.16 0.761
4a6c QG9Gag-Pol polyprotein 3.4.23.16 0.761
1fgc 2NCGag-Pol polyprotein 3.4.23.16 0.760
2qhc AB1Protease / 0.756
1m0b 0ZQGag-Pol polyprotein 3.4.23.16 0.755
1ec2 BEJGag-Pol polyprotein 3.4.23.16 0.754
3sab F78Protease / 0.753
1fg8 0Q4Gag-Pol polyprotein 3.4.23.16 0.751
1hvk A79Gag-Pol polyprotein / 0.750
1d4l PI9Gag-Pol polyprotein 3.4.23.16 0.747
1ebz BECGag-Pol polyprotein 3.4.23.16 0.747
3ndw RITGag-Pol polyprotein 3.4.23.16 0.746
4gb2 0LQGag-Pol polyprotein 2.7.7.49 0.746
2p3b 3TLV-1 PROTEASE protein / 0.744
2p3b 3TLV-1 protease / 0.744
3ndx RITGag-Pol polyprotein 3.4.23.16 0.741
1d4h BEHGag-Pol polyprotein 3.4.23.16 0.740
1w5x BE5Gag-Pol polyprotein 3.4.23.16 0.740
3jw2 017Gag-Pol polyprotein 3.4.23.16 0.739
2aqu DR7Gag-Pol polyprotein 3.4.23.16 0.737
2bpx MK1Gag-Pol polyprotein 3.4.23.16 0.736
1rl8 RITGag-Pol polyprotein 3.4.23.16 0.735
1d4k PI8Gag-Pol polyprotein 3.4.23.16 0.734
3kfn 3TLGag-Pol polyprotein / 0.734
1fej 2NCGag-Pol polyprotein 3.4.23.16 0.733
1ffi 2NCGag-Pol polyprotein 3.4.23.16 0.733
3nxe 2NCProtease / 0.733
3s85 LK0Gag-Pol polyprotein / 0.733
2q5k AB1Protease / 0.732
3jvy 017Gag-Pol polyprotein 3.4.23.16 0.730
3bvb 017Gag-Pol polyprotein 3.4.23.16 0.729
1z1r HBHGag-Pol polyprotein 3.4.23.16 0.728
1ff0 2NCGag-Pol polyprotein 3.4.23.16 0.727
2qi7 MZ9Gag-Pol polyprotein / 0.726
2wl0 5AHGag-Pol polyprotein / 0.726
1hsg MK1Gag-Pol polyprotein / 0.725
2r3t G4GGag-Pol polyprotein 3.4.23.16 0.725
2rkf AB1Pol protein / 0.725
1ec1 BEEGag-Pol polyprotein 3.4.23.16 0.724
1t7i 017Gag-Pol polyprotein 3.4.23.16 0.724
2pk5 075Protease / 0.724
1hvj A78Gag-Pol polyprotein / 0.723
1odx 0E8Gag-Pol polyprotein 3.4.23.16 0.723
2qci 065Gag-Pol polyprotein 3.4.23.16 0.723
3qro NK9Gag-Pol polyprotein 3.4.23.16 0.723
1izi Q50Gag-Pol polyprotein 3.4.23.16 0.722
1siv PSIGag-Pol polyprotein / 0.722
3s54 017Protease / 0.722
3ecg 065Gag-Pol polyprotein 3.4.23.47 0.719
1ebk 0Q4Gag-Pol polyprotein 3.4.23.16 0.717
2qi5 MZ7Gag-Pol polyprotein / 0.717
1d4j MSCGag-Pol polyprotein 3.4.23.16 0.716
1w5v BE3Gag-Pol polyprotein 3.4.23.16 0.716
2f80 017Gag-Pol polyprotein 3.4.23.16 0.716
2hs2 017Protease / 0.716
3fx5 KNIGag-Pol polyprotein 3.4.23.16 0.715
3lzs 017Gag-Pol polyprotein 3.4.23.16 0.715
3o99 K13Pol polyprotein / 0.715
3o9a K14Pol polyprotein / 0.715
3tof 076Gag-Pol polyprotein 2.7.7.49 0.715
2aoe 0Q4Gag-Pol polyprotein 3.4.23.16 0.714
3bva 2NCGag-Pol polyprotein 3.4.23.16 0.714
3qpj N4IGag-Pol polyprotein 3.4.23.16 0.714
1a8k 0Q4Gag-Pol polyprotein 3.4.23.16 0.711
2r43 G3GGag-Pol polyprotein 3.4.23.16 0.711
4dqe 017Gag-Pol polyprotein / 0.711
3o9b K2APol polyprotein / 0.710
3qrs NK8Gag-Pol polyprotein 3.4.23.16 0.710
3vf7 031Gag-Pol polyprotein 3.4.23.16 0.710
2qhy MZ1Gag-Pol polyprotein / 0.709
1ajx AH1Gag-Pol polyprotein 3.4.23.16 0.708
1g35 AHFGag-Pol polyprotein 3.4.23.16 0.706
4hdb G52Gag-Pol polyprotein 3.4.23.16 0.706
4q1x 017Gag-Pol polyprotein 3.4.23.16 0.706
3nu6 478Gag-Pol polyprotein 3.4.23.16 0.705
1hvl A76Gag-Pol polyprotein / 0.704
2xyf G40Gag-Pol polyprotein / 0.704
3el5 1UNGag-Pol polyprotein / 0.704
3toh 079Gag-Pol polyprotein 2.7.7.49 0.704
1w5y BE6Gag-Pol polyprotein 3.4.23.16 0.703
3i6o GR6Gag-Pol polyprotein 3.4.23.16 0.703
3nwq 2NCGag-Pol polyprotein 3.4.23.16 0.703
2b60 RITPol polyprotein / 0.702
3dck KVIProtease / 0.702
2qnq QN3Gag-Pol polyprotein 3.4.23.16 0.701
3kdb 006Gag-Pol polyprotein 3.4.23.16 0.700
3mws 017Pol protein / 0.700
3el9 DR7Gag-Pol polyprotein 3.4.23.16 0.699
3sa3 23XProtease / 0.699
3sa5 A69Protease / 0.699
2f81 017Gag-Pol polyprotein 3.4.23.16 0.697
2xfj VG5Beta-secretase 1 3.4.23.46 0.697
4exg 916Beta-secretase 1 3.4.23.46 0.697
2rkg AB1Pol protein / 0.696
4djp M73Pol polyprotein / 0.696
4k8s 1QTBeta-secretase 1 3.4.23.46 0.695
1hvr XK2Gag-Pol polyprotein / 0.694
2qi4 MZ6Gag-Pol polyprotein / 0.693
2viz VG4Beta-secretase 1 3.4.23.46 0.693
1hxw RITGag-Pol polyprotein / 0.692
4heg G52Gag-Pol polyprotein 3.4.23.16 0.692
3hzc 2NCProtease / 0.691
4k4p 3TLGag-Pol polyprotein / 0.691
4njt 017Protease / 0.691
1vij BAYGag-Pol polyprotein / 0.690
3s43 478Protease / 0.690
4kb9 G79Protease / 0.690
1bdr IM1Gag-Pol polyprotein 3.4.23.16 0.689
1tcx IM1Gag-Pol polyprotein 3.4.23.16 0.689
2vij C44Beta-secretase 1 3.4.23.46 0.689
3o9e A60Pol polyprotein / 0.689
1a8g 2Z4Gag-Pol polyprotein 3.4.23.16 0.688
3a2o KNJGag-Pol polyprotein 3.4.23.16 0.688
3bgc LJHGag-Pol polyprotein 3.4.23.16 0.688
1dif A85Gag-Pol polyprotein / 0.687
3dcr KVSProtease / 0.687
2i4w KGQProtease / 0.686
3djk G55Gag-Pol polyprotein 3.4.23.16 0.686
4dpf 0LGBeta-secretase 1 3.4.23.46 0.686
4ewo 996Beta-secretase 1 3.4.23.46 0.686
4fco 0U4Beta-secretase 1 3.4.23.46 0.686
2xfi XFIBeta-secretase 1 3.4.23.46 0.685
2xfk AA9Beta-secretase 1 3.4.23.46 0.685
3ggx GGXGag-Pol polyprotein / 0.685
3vf5 031Gag-Pol polyprotein 3.4.23.16 0.685
2i4v DJRV-1 protease / 0.684
3o9f K2DGag-Pol polyprotein / 0.684
1hih C20Gag-Pol polyprotein / 0.682
1k6p XN3Gag-Pol polyprotein 3.4.23.16 0.682
3ggu 017Gag-Pol polyprotein 3.4.23.16 0.682
3o9c K20Pol polyprotein / 0.682
1jld 0PPGag-Pol polyprotein / 0.681
3em3 478Gag-Pol polyprotein 3.4.23.16 0.681
4ke1 1R6Beta-secretase 1 3.4.23.46 0.681
3cyw 017Gag-Pol polyprotein 3.4.23.16 0.680
3nyg 2NCGag-Pol polyprotein 3.4.23.16 0.680
3qi1 C6ABeta-secretase 1 3.4.23.46 0.680
3sa9 A68Protease / 0.680
4njv RITProtease / 0.680
2fdd 385Pol protein / 0.679
2p3c 3TLProtease / 0.679
2viy VG3Beta-secretase 1 3.4.23.46 0.679
3oy4 017Gag-Pol polyprotein 3.4.23.16 0.679
4ke0 1R8Beta-secretase 1 3.4.23.46 0.679
2vj6 VG5Beta-secretase 1 3.4.23.46 0.678
2bqv A1AProtease / 0.677
3ckt YDPGag-Pol polyprotein 3.4.23.16 0.676
1ajv NMBGag-Pol polyprotein 3.4.23.16 0.675
1dmp DMQGag-Pol polyprotein 3.4.23.16 0.675
1mrw K57Gag-Pol polyprotein 3.4.23.16 0.675
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.675
3vfb 031Gag-Pol polyprotein 3.4.23.16 0.675
3em6 017Gag-Pol polyprotein 3.4.23.16 0.673
4j54 G52Gag-Pol polyprotein 3.4.23.16 0.673
1t3r 017Gag-Pol polyprotein 3.4.23.16 0.672
2b8l 5HABeta-secretase 1 3.4.23.46 0.672
2qi6 MZ8Gag-Pol polyprotein / 0.672
3t3c 017Gag-Pol polyprotein 3.4.23.16 0.672
4dqc 017Gag-Pol polyprotein / 0.672
3k5c 0BIBeta-secretase 1 3.4.23.46 0.671
3mxd K53Gag-Pol polyprotein 3.4.23.16 0.671
1bai 0Q4Gag-Pro polyprotein / 0.670
2b8v 3BNBeta-secretase 1 3.4.23.46 0.670
2qnn QN1Gag-Pol polyprotein 3.4.23.16 0.670
3veu 0GOBeta-secretase 1 3.4.23.46 0.670
3ttp 017Gag-Pol polyprotein 3.4.23.16 0.669
1sdu MK1Gag-Pol polyprotein 3.4.23.16 0.668
3uhl 2NCGag-Pol polyprotein 3.4.23.16 0.668
4hla 017Gag-Pol polyprotein 3.4.23.16 0.668
4njs G08Protease / 0.668
1c6x 3INProtease / 0.667
3ok9 G52Gag-Pol polyprotein 3.4.23.16 0.667
1npa 3NHGag-Pol polyprotein 3.4.23.16 0.666
1npw LGZGag-Pol polyprotein 3.4.23.16 0.666
3sa8 K83Protease / 0.666
3kdd JZQGag-Pol polyprotein 3.4.23.16 0.665
3lzu 017Gag-Pol polyprotein 3.4.23.16 0.665
3pwm 017Gag-Pol polyprotein 3.4.23.16 0.665
1msm JE2Gag-Pol polyprotein 3.4.23.16 0.663
4dqb 017Gag-Pol polyprotein / 0.663
1bdq IM1Gag-Pol polyprotein 3.4.23.16 0.662
3ekx 1UNGag-Pol polyprotein 3.4.23.16 0.662
1c6y MK1Protease / 0.661
1yt9 OISGag-Pol polyprotein / 0.661
3d1z 017Gag-Pol polyprotein 3.4.23.16 0.661
3gi5 K62Gag-Pol polyprotein / 0.661
3kf0 3TLGag-Pol polyprotein / 0.661
3nwx KVSGag-Pol polyprotein 3.4.23.16 0.661
4qgi ROCGag-Pol polyprotein 3.4.23.16 0.661
3oxv 478Gag-Pol polyprotein 3.4.23.16 0.660
3qrm NK7Gag-Pol polyprotein 3.4.23.16 0.660
1ida 0POGag-Pol polyprotein 3.4.23.47 0.659
2bb9 AKCGag-Pol polyprotein 3.4.23.16 0.659
3vfa 031Gag-Pol polyprotein 3.4.23.16 0.659
4dqh 017Gag-Pol polyprotein / 0.659
1k6v XN2Gag-Pol polyprotein 3.4.23.16 0.658
3ec0 GRLGag-Pol polyprotein 3.4.23.47 0.658
2fle AIProtease / 0.657
2psv MUVProtease / 0.657
2wez ZYEBeta-secretase 1 3.4.23.46 0.657
3nuo 478Gag-Pol polyprotein 3.4.23.16 0.657
3zps EQMGag-Pol polyprotein 3.4.23.16 0.657
4hdp G52Gag-Pol polyprotein 3.4.23.16 0.657
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.656
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.656
3i7e DJRGag-Pol polyprotein / 0.656
3tlh 3TLGag-Pol polyprotein 3.4.23.16 0.656
1wbm BLLPol protein / 0.655
2vie VG0Beta-secretase 1 3.4.23.46 0.655
3kfs 3TLGag-Pol polyprotein / 0.655
1d4y TPVGag-Pol polyprotein 3.4.23.16 0.654
2qhz MZ2Gag-Pol polyprotein / 0.654
3ekp 478Gag-Pol polyprotein 3.4.23.16 0.654
2bpy 3INGag-Pol polyprotein 3.4.23.16 0.653
2nnp ROCProtease / 0.653
2pwr G4GGag-Pol polyprotein 3.4.23.16 0.653
2vj7 VG6Beta-secretase 1 3.4.23.46 0.653
3d1x ROCGag-Pol polyprotein 3.4.23.16 0.653
3dk1 G05Gag-Pol polyprotein 3.4.23.16 0.653
3gi6 D78Gag-Pol polyprotein / 0.653
2qd7 065Gag-Pol polyprotein 3.4.23.16 0.652
2z4o 065Gag-Pol polyprotein 3.4.23.16 0.652
3qbf JHGGag-Pol polyprotein 3.4.23.16 0.652
2p8h MY9Beta-secretase 1 3.4.23.46 0.651
2vj9 VG7Beta-secretase 1 3.4.23.46 0.651
3cid 318Beta-secretase 1 3.4.23.46 0.651
3ekw DR7Gag-Pol polyprotein 3.4.23.16 0.651
3nu4 478Gag-Pol polyprotein 3.4.23.16 0.651