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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
1fff 0Q4 Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
1fff 0Q4Gag-Pol polyprotein 3.4.23.16 1.586
1dw6 0Q4Gag-Pol polyprotein 3.4.23.16 1.219
1fg8 0Q4Gag-Pol polyprotein 3.4.23.16 1.204
1k2c 0Q4Gag-Pol polyprotein 3.4.23.16 1.155
1daz 0Q4Gag-Pol polyprotein 3.4.23.16 1.126
1a94 0Q4Gag-Pol polyprotein 3.4.23.16 1.105
1k1u 0Q4Gag-Pol polyprotein 3.4.23.16 1.094
1k2b 0Q4Gag-Pol polyprotein 3.4.23.16 1.055
2aoe 0Q4Gag-Pol polyprotein 3.4.23.16 1.042
3nwq 2NCGag-Pol polyprotein 3.4.23.16 1.005
1fej 2NCGag-Pol polyprotein 3.4.23.16 0.996
3nwx KVSGag-Pol polyprotein 3.4.23.16 0.994
3nxe 2NCProtease / 0.985
3nyg 2NCGag-Pol polyprotein 3.4.23.16 0.980
1ff0 2NCGag-Pol polyprotein 3.4.23.16 0.969
3hzc 2NCProtease / 0.964
1fg6 2NCGag-Pol polyprotein 3.4.23.16 0.941
2avm 2NCGag-Pol polyprotein 3.4.23.16 0.936
1ffi 2NCGag-Pol polyprotein 3.4.23.16 0.934
1fgc 2NCGag-Pol polyprotein 3.4.23.16 0.929
3kfr 3TLGag-Pol polyprotein / 0.891
3bxr DRRGag-Pol polyprotein 3.4.23.16 0.887
3dck KVIProtease / 0.866
3dcr KVSProtease / 0.866
1a8k 0Q4Gag-Pol polyprotein 3.4.23.16 0.863
3bva 2NCGag-Pol polyprotein 3.4.23.16 0.863
3kfs 3TLGag-Pol polyprotein / 0.849
2p3b 3TLV-1 PROTEASE protein / 0.837
2p3b 3TLV-1 protease / 0.837
3i2l 2NCProtease / 0.837
1izi Q50Gag-Pol polyprotein 3.4.23.16 0.834
4k4p 3TLGag-Pol polyprotein / 0.831
2fxe DR7Gag-Pol polyprotein 3.4.23.16 0.829
3el1 DR7Gag-Pol polyprotein 3.4.23.16 0.827
3oxx DR7Gag-Pol polyprotein 3.4.23.16 0.822
2a1e IPFGag-Pol polyprotein 3.4.23.16 0.821
1zsr 0ZTGag-Pol polyprotein 3.4.23.16 0.807
2aqu DR7Gag-Pol polyprotein 3.4.23.16 0.807
3kf0 3TLGag-Pol polyprotein / 0.806
1bai 0Q4Gag-Pro polyprotein / 0.803
3i6o GR6Gag-Pol polyprotein 3.4.23.16 0.800
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.798
3kfn 3TLGag-Pol polyprotein / 0.795
1hih C20Gag-Pol polyprotein / 0.792
3jvy 017Gag-Pol polyprotein 3.4.23.16 0.791
1b6k PI5Gag-Pol polyprotein 3.4.23.16 0.788
1z1h HBBGag-Pol polyprotein 3.4.23.16 0.788
1hvs A77Gag-Pol polyprotein / 0.784
2p3d 3TLProtease / 0.784
1izh Q50Protease / 0.781
3toh 079Gag-Pol polyprotein 2.7.7.49 0.775
1z1r HBHGag-Pol polyprotein 3.4.23.16 0.773
1hvj A78Gag-Pol polyprotein / 0.771
2cen 4AHProtease / 0.771
2uy0 HV1Gag-Pol polyprotein 3.4.23.16 0.771
3jw2 017Gag-Pol polyprotein 3.4.23.16 0.770
1ody LP1Gag-Pol polyprotein 3.4.23.16 0.769
3ekw DR7Gag-Pol polyprotein 3.4.23.16 0.769
4hdf G52Gag-Pol polyprotein 3.4.23.16 0.769
3el9 DR7Gag-Pol polyprotein 3.4.23.16 0.768
1m0b 0ZQGag-Pol polyprotein 3.4.23.16 0.767
2q54 MU1Protease / 0.767
1hii C20Gag-Pol polyprotein / 0.763
1sdt MK1Gag-Pol polyprotein 3.4.23.16 0.763
3vf7 031Gag-Pol polyprotein 3.4.23.16 0.763
1zj7 0ZTGag-Pol polyprotein 3.4.23.16 0.761
2hs1 017Protease / 0.761
1siv PSIGag-Pol polyprotein / 0.758
1hvl A76Gag-Pol polyprotein / 0.757
2p3c 3TLProtease / 0.756
2qi5 MZ7Gag-Pol polyprotein / 0.756
1d4l PI9Gag-Pol polyprotein 3.4.23.16 0.754
2qd8 065Gag-Pol polyprotein 3.4.23.16 0.754
3lzs 017Gag-Pol polyprotein 3.4.23.16 0.754
9hvp 0E9Gag-Pol polyprotein / 0.753
2bb9 AKCGag-Pol polyprotein 3.4.23.16 0.750
1t3r 017Gag-Pol polyprotein 3.4.23.16 0.748
3o99 K13Pol polyprotein / 0.748
3slz 3TLPutative gag-pro-pol polyprotein / 0.748
3qaa G04Gag-Pol polyprotein 3.4.23.16 0.744
1ebk 0Q4Gag-Pol polyprotein 3.4.23.16 0.742
3o9a K14Pol polyprotein / 0.742
4dqe 017Gag-Pol polyprotein / 0.742
1b6l PI4Gag-Pol polyprotein 3.4.23.16 0.740
1wbm BLLPol protein / 0.740
3s56 ROCProtease / 0.740
4dqb 017Gag-Pol polyprotein / 0.740
1ec3 MS3Gag-Pol polyprotein 3.4.23.16 0.739
3vfb 031Gag-Pol polyprotein 3.4.23.16 0.739
2pk5 075Protease / 0.736
2ien 017Gag-Pol polyprotein 3.4.23.16 0.735
1hxw RITGag-Pol polyprotein / 0.734
3d20 017Gag-Pol polyprotein 3.4.23.16 0.734
3st5 G89Gag-Pol polyprotein 3.4.23.16 0.734
3ok9 G52Gag-Pol polyprotein 3.4.23.16 0.733
1n49 RITGag-Pol polyprotein 3.4.23.16 0.732
3o9b K2APol polyprotein / 0.732
3sa9 A68Protease / 0.732
3tog 079Gag-Pol polyprotein 2.7.7.49 0.732
2fxd DR7Pol polyprotein / 0.731
1iiq 0ZRGag-Pol polyprotein 3.4.23.16 0.729
2qci 065Gag-Pol polyprotein 3.4.23.16 0.729
2qhy MZ1Gag-Pol polyprotein / 0.729
4heg G52Gag-Pol polyprotein 3.4.23.16 0.729
1bdq IM1Gag-Pol polyprotein 3.4.23.16 0.728
1dif A85Gag-Pol polyprotein / 0.728
2cem 2AHPol protein / 0.728
2fde 385Gag-Pol polyprotein 3.4.23.16 0.727
3vfa 031Gag-Pol polyprotein 3.4.23.16 0.725
3lzv 017Gag-Pol polyprotein 3.4.23.16 0.723
1hos PHPGag-Pol polyprotein / 0.722
2bbb HH1Gag-Pol polyprotein 3.4.23.16 0.722
3ndt ROCGag-Pol polyprotein 3.4.23.16 0.722
3tof 076Gag-Pol polyprotein 2.7.7.49 0.722
4njt 017Protease / 0.722
1bdr IM1Gag-Pol polyprotein 3.4.23.16 0.721
1g2k NM1Gag-Pol polyprotein 3.4.23.16 0.721
3bvb 017Gag-Pol polyprotein 3.4.23.16 0.721
4dqf 017Gag-Pol polyprotein / 0.720
2f8g 017Gag-Pol polyprotein 3.4.23.16 0.719
2bpw 1INGag-Pol polyprotein 3.4.23.16 0.717
3s85 LK0Gag-Pol polyprotein / 0.717
4j54 G52Gag-Pol polyprotein 3.4.23.16 0.717
1ec1 BEEGag-Pol polyprotein 3.4.23.16 0.716
1npv L27Gag-Pol polyprotein 3.4.23.16 0.716
2p3a 3TLPol protein / 0.716
3o9c K20Pol polyprotein / 0.716
3o9e A60Pol polyprotein / 0.716
3sa3 23XProtease / 0.716
1c70 L75Protease / 0.715
1hvi A77Protease / 0.715
3cyw 017Gag-Pol polyprotein 3.4.23.16 0.715
3sa5 A69Protease / 0.715
1rl8 RITGag-Pol polyprotein 3.4.23.16 0.714
3zps EQMGag-Pol polyprotein 3.4.23.16 0.714
3zpt M8YGag-Pol polyprotein 3.4.23.16 0.714
2f80 017Gag-Pol polyprotein 3.4.23.16 0.711
1mtr PI6Gag-Pol polyprotein 3.4.23.16 0.710
3k4v ROCGag-Pol polyprotein 3.4.23.16 0.710
2wkz 5AHGag-Pol polyprotein / 0.709
2wl0 5AHGag-Pol polyprotein / 0.709
3ndx RITGag-Pol polyprotein 3.4.23.16 0.709
3o9i A61Gag-Pol polyprotein / 0.709
3vf5 031Gag-Pol polyprotein 3.4.23.16 0.709
3eky DR7Gag-Pol polyprotein 3.4.23.16 0.708
3ecg 065Gag-Pol polyprotein 3.4.23.47 0.707
2ieo 017Protease / 0.706
3ndu ROCGag-Pol polyprotein 3.4.23.16 0.706
2b60 RITPol polyprotein / 0.705
1ebw BEIGag-Pol polyprotein 3.4.23.16 0.704
2bpv 1INGag-Pol polyprotein 3.4.23.16 0.704
2i4v DJRV-1 protease / 0.704
3sa7 55AProtease / 0.704
1ec2 BEJGag-Pol polyprotein 3.4.23.16 0.703
1zsf 0ZSGag-Pol polyprotein 3.4.23.16 0.702
2qd7 065Gag-Pol polyprotein 3.4.23.16 0.702
1b6m PI6Gag-Pol polyprotein 3.4.23.16 0.701
2fdd 385Pol protein / 0.701
3ekv 478Gag-Pol polyprotein 3.4.23.16 0.701
3lzu 017Gag-Pol polyprotein 3.4.23.16 0.701
4njv RITProtease / 0.700
2i4x KGQProtease / 0.699
2z4o 065Gag-Pol polyprotein 3.4.23.16 0.699
2cej 1AHPol protein / 0.698
2bpy 3INGag-Pol polyprotein 3.4.23.16 0.697
1ivp 1ZKGag-Pol polyprotein / 0.696
2bqv A1AProtease / 0.695
3ndw RITGag-Pol polyprotein 3.4.23.16 0.695
3tl9 ROCGag-Pol polyprotein 3.4.23.16 0.695
4hdp G52Gag-Pol polyprotein 3.4.23.16 0.694
4q1y 017Gag-Pol polyprotein 3.4.23.16 0.693
1hvk A79Gag-Pol polyprotein / 0.692
3pwm 017Gag-Pol polyprotein 3.4.23.16 0.692
3pwr ROCGag-Pol polyprotein 3.4.23.16 0.692
3djk G55Gag-Pol polyprotein 3.4.23.16 0.690
2f3k RO1Protease / 0.689
2xye CXGGag-Pol polyprotein / 0.689
4hdb G52Gag-Pol polyprotein 3.4.23.16 0.689
1ida 0POGag-Pol polyprotein 3.4.23.47 0.686
3gi4 K60Gag-Pol polyprotein / 0.686
3a2o KNJGag-Pol polyprotein 3.4.23.16 0.685
1tcx IM1Gag-Pol polyprotein 3.4.23.16 0.683
1k6c MK1Gag-Pol polyprotein 3.4.23.16 0.682
3ekx 1UNGag-Pol polyprotein 3.4.23.16 0.682
4rvj 478Protease / 0.681
1d4k PI8Gag-Pol polyprotein 3.4.23.16 0.680
3cyx ROCGag-Pol polyprotein 3.4.23.16 0.680
1ec0 BEDGag-Pol polyprotein 3.4.23.16 0.679
1sdv MK1Gag-Pol polyprotein 3.4.23.16 0.679
2idw 017Protease / 0.679
2nmy ROCProtease / 0.679
3t3c 017Gag-Pol polyprotein 3.4.23.16 0.679
1sbg IM1Gag-Pol polyprotein / 0.678
1t7i 017Gag-Pol polyprotein 3.4.23.16 0.678
3em3 478Gag-Pol polyprotein 3.4.23.16 0.678
3ttp 017Gag-Pol polyprotein 3.4.23.16 0.678
3bxs DRSGag-Pol polyprotein 3.4.23.16 0.677
3lin E13Protease / 0.677
3mws 017Pol protein / 0.677
1hiv 1ZKGag-Pol polyprotein / 0.676
1hpx KNIGag-Pol polyprotein / 0.676
1jld 0PPGag-Pol polyprotein / 0.676
1mrx K57Gag-Pol polyprotein 3.4.23.16 0.676
1vik BAYGag-Pol polyprotein / 0.676
4q1x 017Gag-Pol polyprotein 3.4.23.16 0.676
3d1y ROCGag-Pol polyprotein 3.4.23.16 0.675
3el4 ROCGag-Pol polyprotein 3.4.23.16 0.675
3nu3 478Gag-Pol polyprotein 3.4.23.16 0.675
3sa8 K83Protease / 0.675
1a8g 2Z4Gag-Pol polyprotein 3.4.23.16 0.674
1t7j 478Gag-Pol polyprotein 3.4.23.16 0.673
1a9m U0EGag-Pol polyprotein / 0.672
2qi4 MZ6Gag-Pol polyprotein / 0.671
3d1x ROCGag-Pol polyprotein 3.4.23.16 0.671
3oy4 017Gag-Pol polyprotein 3.4.23.16 0.670
1w5y BE6Gag-Pol polyprotein 3.4.23.16 0.669
2pym 1UNGag-Pol polyprotein 3.4.23.16 0.669
3sab F78Protease / 0.669
1hsg MK1Gag-Pol polyprotein / 0.668
1ivq 0PXGag-Pol polyprotein / 0.668
3saa 77FProtease / 0.668
1hsh MK1Gag-Pol polyprotein / 0.667
1vij BAYGag-Pol polyprotein / 0.667
3dk1 G05Gag-Pol polyprotein 3.4.23.16 0.667
2qd6 065Gag-Pol polyprotein 3.4.23.16 0.666
2avv MK1Gag-Pol polyprotein 3.4.23.16 0.665
4i8z G08Gag-Pol polyprotein 3.4.23.16 0.665
3liq E14Protease / 0.664
4a6c QG9Gag-Pol polyprotein 3.4.23.16 0.664
2fmb LP1Reverse transcriptase / 0.663
2qi0 MZ3Gag-Pol polyprotein / 0.663
1mui AB1Protease / 0.662
1ohr 1UNV-1 PROTEASE protein / 0.662
2hs2 017Protease / 0.662
3ekq ROCGag-Pol polyprotein 3.4.23.16 0.662
3oxw 017Gag-Pol polyprotein 3.4.23.16 0.662
4njs G08Protease / 0.662
2bpx MK1Gag-Pol polyprotein 3.4.23.16 0.661
3el0 1UNGag-Pol polyprotein 3.4.23.16 0.661
3ggx GGXGag-Pol polyprotein / 0.660
4qgi ROCGag-Pol polyprotein 3.4.23.16 0.660
1t7k BH0Gag-Pol polyprotein 3.4.23.16 0.659
3ufn ROCGag-Pol polyprotein / 0.659
3zpu M8BGag-Pol polyprotein 3.4.23.16 0.659
4kb9 G79Protease / 0.659
1d4y TPVGag-Pol polyprotein 3.4.23.16 0.657
2psu MUUProtease / 0.657
2r3t G4GGag-Pol polyprotein 3.4.23.16 0.657
4dfg 0JVGag-Pol polyprotein 3.4.23.16 0.657
4ye3 G04Gag-Pol polyprotein 3.4.23.16 0.657
1sdu MK1Gag-Pol polyprotein 3.4.23.16 0.656
2f81 017Gag-Pol polyprotein 3.4.23.16 0.656
2qak 1UNGag-Pol polyprotein 3.4.23.16 0.656
1k6v XN2Gag-Pol polyprotein 3.4.23.16 0.655
2pk6 O33V-1 protease / 0.655
2uxz HI1Gag-Pol polyprotein 3.4.23.16 0.655
3sa4 F72Protease / 0.654
2r5p MK1Gag-Pol polyprotein / 0.653
3ekt 017Gag-Pol polyprotein 3.4.23.16 0.653
3s43 478Protease / 0.653
3em6 017Gag-Pol polyprotein 3.4.23.16 0.652
3nu9 478Gag-Pol polyprotein 3.4.23.16 0.652
3nuo 478Gag-Pol polyprotein 3.4.23.16 0.652
4djo MK5Pol polyprotein / 0.652
3tlh 3TLGag-Pol polyprotein 3.4.23.16 0.650
4djq M86Pol polyprotein / 0.650