Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
3i6o GR6 Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3i6o GR6Gag-Pol polyprotein 3.4.23.16 1.358
4heg G52Gag-Pol polyprotein 3.4.23.16 1.114
3o9a K14Pol polyprotein / 1.112
4hdp G52Gag-Pol polyprotein 3.4.23.16 1.105
3o9f K2DGag-Pol polyprotein / 1.068
2qd7 065Gag-Pol polyprotein 3.4.23.16 1.067
3o9h K2EGag-Pol polyprotein / 1.065
3qaa G04Gag-Pol polyprotein 3.4.23.16 1.063
2i4u DJRProtease / 1.061
4kb9 G79Protease / 1.050
3ecg 065Gag-Pol polyprotein 3.4.23.47 1.048
3st5 G89Gag-Pol polyprotein 3.4.23.16 1.040
1t7i 017Gag-Pol polyprotein 3.4.23.16 1.034
3vf5 031Gag-Pol polyprotein 3.4.23.16 1.030
3o99 K13Pol polyprotein / 1.022
4hdf G52Gag-Pol polyprotein 3.4.23.16 1.020
1t3r 017Gag-Pol polyprotein 3.4.23.16 1.019
3vfb 031Gag-Pol polyprotein 3.4.23.16 1.019
3o9g F53Gag-Pol polyprotein / 1.018
3oy4 017Gag-Pol polyprotein 3.4.23.16 1.014
2qci 065Gag-Pol polyprotein 3.4.23.16 1.011
3vf7 031Gag-Pol polyprotein 3.4.23.16 1.011
2f80 017Gag-Pol polyprotein 3.4.23.16 1.006
2hb3 GRLProtease / 1.006
2f81 017Gag-Pol polyprotein 3.4.23.16 1.005
2qd8 065Gag-Pol polyprotein 3.4.23.16 1.004
4dfg 0JVGag-Pol polyprotein 3.4.23.16 1.002
4dqe 017Gag-Pol polyprotein / 1.002
3o9d K19Pol polyprotein / 1.001
3vfa 031Gag-Pol polyprotein 3.4.23.16 1.001
4djo MK5Pol polyprotein / 1.001
2i4d QFIProtease / 1.000
2i4w KGQProtease / 0.999
4dqb 017Gag-Pol polyprotein / 0.999
3pwm 017Gag-Pol polyprotein 3.4.23.16 0.998
4dqh 017Gag-Pol polyprotein / 0.998
4dqc 017Gag-Pol polyprotein / 0.997
2i4x KGQProtease / 0.996
2z4o 065Gag-Pol polyprotein 3.4.23.16 0.996
3djk G55Gag-Pol polyprotein 3.4.23.16 0.992
3dk1 G05Gag-Pol polyprotein 3.4.23.16 0.992
3o9i A61Gag-Pol polyprotein / 0.990
2ien 017Gag-Pol polyprotein 3.4.23.16 0.989
3r4b 74TGag-Pol polyprotein / 0.985
3t3c 017Gag-Pol polyprotein 3.4.23.16 0.985
4q1w 017Gag-Pol polyprotein 3.4.23.16 0.983
4j54 G52Gag-Pol polyprotein 3.4.23.16 0.981
2qd6 065Gag-Pol polyprotein 3.4.23.16 0.980
3i7e DJRGag-Pol polyprotein / 0.976
3mws 017Pol protein / 0.976
2idw 017Protease / 0.973
3ekt 017Gag-Pol polyprotein 3.4.23.16 0.972
3lzu 017Gag-Pol polyprotein 3.4.23.16 0.969
3o9b K2APol polyprotein / 0.969
3ok9 G52Gag-Pol polyprotein 3.4.23.16 0.969
3em6 017Gag-Pol polyprotein 3.4.23.16 0.966
2fdd 385Pol protein / 0.962
3o9e A60Pol polyprotein / 0.962
4njs G08Protease / 0.962
4ye3 G04Gag-Pol polyprotein 3.4.23.16 0.962
4q1y 017Gag-Pol polyprotein 3.4.23.16 0.956
4dqf 017Gag-Pol polyprotein / 0.954
3sa8 K83Protease / 0.949
3d20 017Gag-Pol polyprotein 3.4.23.16 0.936
3mxd K53Gag-Pol polyprotein 3.4.23.16 0.933
3lzv 017Gag-Pol polyprotein 3.4.23.16 0.932
3lzs 017Gag-Pol polyprotein 3.4.23.16 0.930
4njt 017Protease / 0.929
2i4v DJRV-1 protease / 0.928
2hs1 017Protease / 0.926
4i8z G08Gag-Pol polyprotein 3.4.23.16 0.925
2hs2 017Protease / 0.922
3ucb 017Gag-Pol polyprotein / 0.922
3cyw 017Gag-Pol polyprotein 3.4.23.16 0.921
3d1z 017Gag-Pol polyprotein 3.4.23.16 0.919
3jvy 017Gag-Pol polyprotein 3.4.23.16 0.919
3o9c K20Pol polyprotein / 0.918
2ieo 017Protease / 0.916
3saa 77FProtease / 0.916
4hdb G52Gag-Pol polyprotein 3.4.23.16 0.910
2qi5 MZ7Gag-Pol polyprotein / 0.902
3s54 017Protease / 0.902
4q1x 017Gag-Pol polyprotein 3.4.23.16 0.902
4hla 017Gag-Pol polyprotein 3.4.23.16 0.901
3sa4 F72Protease / 0.899
3jw2 017Gag-Pol polyprotein 3.4.23.16 0.898
3ggu 017Gag-Pol polyprotein 3.4.23.16 0.896
2qi7 MZ9Gag-Pol polyprotein / 0.890
4j55 031Gag-Pol polyprotein 3.4.23.16 0.889
2i0a MUIProtease / 0.888
2qi0 MZ3Gag-Pol polyprotein / 0.888
3oxw 017Gag-Pol polyprotein 3.4.23.16 0.887
2fde 385Gag-Pol polyprotein 3.4.23.16 0.882
2qhy MZ1Gag-Pol polyprotein / 0.879
3sa5 A69Protease / 0.879
3sa9 A68Protease / 0.879
3ec0 GRLGag-Pol polyprotein 3.4.23.47 0.877
3mxe K54Gag-Pol polyprotein 3.4.23.16 0.877
4djr 0KJPol polyprotein / 0.877
3ttp 017Gag-Pol polyprotein 3.4.23.16 0.876
1z1r HBHGag-Pol polyprotein 3.4.23.16 0.875
3gi4 K60Gag-Pol polyprotein / 0.875
2f8g 017Gag-Pol polyprotein 3.4.23.16 0.865
3bvb 017Gag-Pol polyprotein 3.4.23.16 0.862
4djq M86Pol polyprotein / 0.859
2qi4 MZ6Gag-Pol polyprotein / 0.857
2qi6 MZ8Gag-Pol polyprotein / 0.854
3gi5 K62Gag-Pol polyprotein / 0.852
3eky DR7Gag-Pol polyprotein 3.4.23.16 0.851
3sa7 55AProtease / 0.849
3oxx DR7Gag-Pol polyprotein 3.4.23.16 0.844
3gi6 D78Gag-Pol polyprotein / 0.842
1z1h HBBGag-Pol polyprotein 3.4.23.16 0.839
3sa3 23XProtease / 0.839
3sa6 F71Protease / 0.831
3nu6 478Gag-Pol polyprotein 3.4.23.16 0.828
3el4 ROCGag-Pol polyprotein 3.4.23.16 0.822
3sac AF8Protease / 0.820
3oxv 478Gag-Pol polyprotein 3.4.23.16 0.819
2i0d MUTProtease / 0.818
3em3 478Gag-Pol polyprotein 3.4.23.16 0.818
3nu3 478Gag-Pol polyprotein 3.4.23.16 0.818
3sab F78Protease / 0.817
3ekv 478Gag-Pol polyprotein 3.4.23.16 0.816
3el9 DR7Gag-Pol polyprotein 3.4.23.16 0.814
3nuo 478Gag-Pol polyprotein 3.4.23.16 0.813
2psu MUUProtease / 0.806
2qi3 MZ5Gag-Pol polyprotein / 0.805
3nu9 478Gag-Pol polyprotein 3.4.23.16 0.805
2qhz MZ2Gag-Pol polyprotein / 0.803
3nu4 478Gag-Pol polyprotein 3.4.23.16 0.803
1fff 0Q4Gag-Pol polyprotein 3.4.23.16 0.800
3d1y ROCGag-Pol polyprotein 3.4.23.16 0.798
1d4l PI9Gag-Pol polyprotein 3.4.23.16 0.795
3tl9 ROCGag-Pol polyprotein 3.4.23.16 0.783
3ufn ROCGag-Pol polyprotein / 0.783
3nu5 478Gag-Pol polyprotein 3.4.23.16 0.781
2aqu DR7Gag-Pol polyprotein 3.4.23.16 0.780
2pym 1UNGag-Pol polyprotein 3.4.23.16 0.779
4j5j 478Gag-Pol polyprotein 3.4.23.16 0.778
1b6l PI4Gag-Pol polyprotein 3.4.23.16 0.777
2a1e IPFGag-Pol polyprotein 3.4.23.16 0.774
1ida 0POGag-Pol polyprotein 3.4.23.47 0.773
2f3k RO1Protease / 0.770
3ekq ROCGag-Pol polyprotein 3.4.23.16 0.767
1hpv 478Gag-Pol polyprotein / 0.766
2nmy ROCProtease / 0.766
3pwr ROCGag-Pol polyprotein 3.4.23.16 0.766
3nuj 478Gag-Pol polyprotein 3.4.23.16 0.765
3s43 478Protease / 0.763
3em4 DR7Gag-Pol polyprotein 3.4.23.16 0.760
3s85 LK0Gag-Pol polyprotein / 0.760
2psv MUVProtease / 0.757
3kdc JZPGag-Pol polyprotein 3.4.23.16 0.756
3slz 3TLPutative gag-pro-pol polyprotein / 0.752
2nnp ROCProtease / 0.751
3sm2 478Putative gag-pro-pol polyprotein / 0.751
3k4v ROCGag-Pol polyprotein 3.4.23.16 0.749
1yt9 OISGag-Pol polyprotein / 0.747
2p3c 3TLProtease / 0.747
1npa 3NHGag-Pol polyprotein 3.4.23.16 0.743
1npw LGZGag-Pol polyprotein 3.4.23.16 0.743
1t7j 478Gag-Pol polyprotein 3.4.23.16 0.743
1mrw K57Gag-Pol polyprotein 3.4.23.16 0.742
1hvi A77Protease / 0.740
4qgi ROCGag-Pol polyprotein 3.4.23.16 0.740
1ohr 1UNV-1 PROTEASE protein / 0.738
2cem 2AHPol protein / 0.738
2a4f AAUV-1 protease / 0.736
4djp M73Pol polyprotein / 0.736
3el0 1UNGag-Pol polyprotein 3.4.23.16 0.733
4rvj 478Protease / 0.732
1sdt MK1Gag-Pol polyprotein 3.4.23.16 0.729
2bbb HH1Gag-Pol polyprotein 3.4.23.16 0.729
1fg8 0Q4Gag-Pol polyprotein 3.4.23.16 0.727
1sdv MK1Gag-Pol polyprotein 3.4.23.16 0.727
2qak 1UNGag-Pol polyprotein 3.4.23.16 0.726
3ndt ROCGag-Pol polyprotein 3.4.23.16 0.725
1bwa XV6Gag-Pol polyprotein 3.4.23.16 0.724
1ffi 2NCGag-Pol polyprotein 3.4.23.16 0.723
1qbt 146Gag-Pol polyprotein 3.4.23.16 0.723
2cen 4AHProtease / 0.721
3dck KVIProtease / 0.720
1izh Q50Protease / 0.719
2fle AIProtease / 0.719
3d1x ROCGag-Pol polyprotein 3.4.23.16 0.718
3i2l 2NCProtease / 0.718
3jvw DMPGag-Pol polyprotein 3.4.23.16 0.718
3kdb 006Gag-Pol polyprotein 3.4.23.16 0.718
3nyg 2NCGag-Pol polyprotein 3.4.23.16 0.717
2nnk ROCProtease / 0.715
3cyx ROCGag-Pol polyprotein 3.4.23.16 0.715
3s56 ROCProtease / 0.715
4gb2 0LQGag-Pol polyprotein 2.7.7.49 0.715
2b60 RITPol polyprotein / 0.712
3bxr DRRGag-Pol polyprotein 3.4.23.16 0.712
1msn JE2Gag-Pol polyprotein 3.4.23.16 0.709
3nwq 2NCGag-Pol polyprotein 3.4.23.16 0.707
1sbg IM1Gag-Pol polyprotein / 0.705
1bv9 XV6Gag-Pol polyprotein 3.4.23.16 0.704
3nwx KVSGag-Pol polyprotein 3.4.23.16 0.704
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.703
1t7k BH0Gag-Pol polyprotein 3.4.23.16 0.702
1dw6 0Q4Gag-Pol polyprotein 3.4.23.16 0.701
1fg6 2NCGag-Pol polyprotein 3.4.23.16 0.701
2p3a 3TLPol protein / 0.700
2bb9 AKCGag-Pol polyprotein 3.4.23.16 0.698
1k6t XN1Gag-Pol polyprotein 3.4.23.16 0.697
1m0b 0ZQGag-Pol polyprotein 3.4.23.16 0.697
3bxs DRSGag-Pol polyprotein 3.4.23.16 0.693
2fxe DR7Gag-Pol polyprotein 3.4.23.16 0.692
3dcr KVSProtease / 0.690
3kfn 3TLGag-Pol polyprotein / 0.690
1d4h BEHGag-Pol polyprotein 3.4.23.16 0.689
3nxe 2NCProtease / 0.689
1fej 2NCGag-Pol polyprotein 3.4.23.16 0.686
2q64 1UNGag-Pol polyprotein 3.4.23.16 0.686
4nju TPVProtease / 0.686
1a8g 2Z4Gag-Pol polyprotein 3.4.23.16 0.684
1izi Q50Gag-Pol polyprotein 3.4.23.16 0.684
2q5k AB1Protease / 0.684
1npv L27Gag-Pol polyprotein 3.4.23.16 0.683
1pro A88Gag-Pol polyprotein / 0.682
1idb 0DOGag-Pol polyprotein / 0.681
2q63 1UNGag-Pol polyprotein 3.4.23.16 0.681
3fx5 KNIGag-Pol polyprotein 3.4.23.16 0.681
3so9 017Pol protein / 0.681
1rl8 RITGag-Pol polyprotein 3.4.23.16 0.678
1qbr XV6Gag-Pol polyprotein 3.4.23.16 0.677
2q54 MU1Protease / 0.677
1ff0 2NCGag-Pol polyprotein 3.4.23.16 0.676
1hos PHPGag-Pol polyprotein / 0.676
1jld 0PPGag-Pol polyprotein / 0.676
2q55 MU0Protease / 0.676
1d4j MSCGag-Pol polyprotein 3.4.23.16 0.675
2wl0 5AHGag-Pol polyprotein / 0.675
4fe6 0TQGag-Pol polyprotein 3.4.23.16 0.674
1hxb ROCGag-Pol polyprotein 3.4.23.16 0.673
1kzk JE2Gag-Pol polyprotein 3.4.23.16 0.673
3kfr 3TLGag-Pol polyprotein / 0.672
1w5x BE5Gag-Pol polyprotein 3.4.23.16 0.669
3ixj 586Beta-secretase 1 3.4.23.46 0.669
1d4i BEGGag-Pol polyprotein 3.4.23.16 0.668
2bqv A1AProtease / 0.667
1fgc 2NCGag-Pol polyprotein 3.4.23.16 0.665
1g35 AHFGag-Pol polyprotein 3.4.23.16 0.664
1k1u 0Q4Gag-Pol polyprotein 3.4.23.16 0.664
1ajv NMBGag-Pol polyprotein 3.4.23.16 0.661
1zsf 0ZSGag-Pol polyprotein 3.4.23.16 0.660
4njv RITProtease / 0.660
1ec3 MS3Gag-Pol polyprotein 3.4.23.16 0.659
1hxw RITGag-Pol polyprotein / 0.659
3ndx RITGag-Pol polyprotein 3.4.23.16 0.659
3qn8 NI7Gag-Pol polyprotein 3.4.23.16 0.658
2bpw 1INGag-Pol polyprotein 3.4.23.16 0.657
3qih NI7Gag-Pol polyprotein 3.4.23.16 0.657
4a6b QG8Gag-Pol polyprotein 3.4.23.16 0.657
1dif A85Gag-Pol polyprotein / 0.656
2z54 AB1Gag-Pol polyprotein 3.4.23.16 0.656
3aid ARQGag-Pol polyprotein 3.4.23.16 0.656
3kf0 3TLGag-Pol polyprotein / 0.655
1a94 0Q4Gag-Pol polyprotein 3.4.23.16 0.654
3gga GGWGag-Pol polyprotein / 0.654
3tog 079Gag-Pol polyprotein 2.7.7.49 0.654
1ec1 BEEGag-Pol polyprotein 3.4.23.16 0.653
2p3d 3TLProtease / 0.653
1eby BEBGag-Pol polyprotein 3.4.23.16 0.652
1sdu MK1Gag-Pol polyprotein 3.4.23.16 0.652
3tof 076Gag-Pol polyprotein 2.7.7.49 0.652
1eag A70Candidapepsin-2 3.4.23.24 0.651