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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
3lzu 017 Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
3lzu 017Gag-Pol polyprotein 3.4.23.16 1.360
3d20 017Gag-Pol polyprotein 3.4.23.16 1.185
3ekt 017Gag-Pol polyprotein 3.4.23.16 1.150
3lzs 017Gag-Pol polyprotein 3.4.23.16 1.146
2ien 017Gag-Pol polyprotein 3.4.23.16 1.140
3ggu 017Gag-Pol polyprotein 3.4.23.16 1.131
4dqc 017Gag-Pol polyprotein / 1.130
2f81 017Gag-Pol polyprotein 3.4.23.16 1.127
3pwm 017Gag-Pol polyprotein 3.4.23.16 1.126
3mws 017Pol protein / 1.119
2f80 017Gag-Pol polyprotein 3.4.23.16 1.111
4dqe 017Gag-Pol polyprotein / 1.106
3oxw 017Gag-Pol polyprotein 3.4.23.16 1.105
4dqh 017Gag-Pol polyprotein / 1.104
2qci 065Gag-Pol polyprotein 3.4.23.16 1.101
1t7i 017Gag-Pol polyprotein 3.4.23.16 1.096
3o9e A60Pol polyprotein / 1.088
4heg G52Gag-Pol polyprotein 3.4.23.16 1.082
3em6 017Gag-Pol polyprotein 3.4.23.16 1.077
2z4o 065Gag-Pol polyprotein 3.4.23.16 1.076
4dqf 017Gag-Pol polyprotein / 1.073
2ieo 017Protease / 1.067
3lzv 017Gag-Pol polyprotein 3.4.23.16 1.067
3r4b 74TGag-Pol polyprotein / 1.063
3st5 G89Gag-Pol polyprotein 3.4.23.16 1.060
2qd8 065Gag-Pol polyprotein 3.4.23.16 1.053
3o9a K14Pol polyprotein / 1.053
4dqb 017Gag-Pol polyprotein / 1.051
4q1w 017Gag-Pol polyprotein 3.4.23.16 1.051
1t3r 017Gag-Pol polyprotein 3.4.23.16 1.048
3ucb 017Gag-Pol polyprotein / 1.046
3o9h K2EGag-Pol polyprotein / 1.045
3oy4 017Gag-Pol polyprotein 3.4.23.16 1.043
4i8z G08Gag-Pol polyprotein 3.4.23.16 1.040
4hdf G52Gag-Pol polyprotein 3.4.23.16 1.039
2qd7 065Gag-Pol polyprotein 3.4.23.16 1.038
3ecg 065Gag-Pol polyprotein 3.4.23.47 1.034
4njt 017Protease / 1.033
4njs G08Protease / 1.029
2fdd 385Pol protein / 1.028
2f8g 017Gag-Pol polyprotein 3.4.23.16 1.027
3cyw 017Gag-Pol polyprotein 3.4.23.16 1.016
3o9f K2DGag-Pol polyprotein / 1.014
2i4u DJRProtease / 1.011
3o99 K13Pol polyprotein / 1.011
3ok9 G52Gag-Pol polyprotein 3.4.23.16 1.003
3qaa G04Gag-Pol polyprotein 3.4.23.16 1.003
2idw 017Protease / 1.001
3o9d K19Pol polyprotein / 1.001
3o9c K20Pol polyprotein / 0.999
2hs1 017Protease / 0.995
3nu9 478Gag-Pol polyprotein 3.4.23.16 0.992
3jvy 017Gag-Pol polyprotein 3.4.23.16 0.989
3o9i A61Gag-Pol polyprotein / 0.987
3ttp 017Gag-Pol polyprotein 3.4.23.16 0.986
4q1y 017Gag-Pol polyprotein 3.4.23.16 0.981
2qd6 065Gag-Pol polyprotein 3.4.23.16 0.978
3jw2 017Gag-Pol polyprotein 3.4.23.16 0.978
4dfg 0JVGag-Pol polyprotein 3.4.23.16 0.973
3i6o GR6Gag-Pol polyprotein 3.4.23.16 0.969
2hb3 GRLProtease / 0.964
3d1z 017Gag-Pol polyprotein 3.4.23.16 0.960
3vfa 031Gag-Pol polyprotein 3.4.23.16 0.959
4q1x 017Gag-Pol polyprotein 3.4.23.16 0.958
3o9b K2APol polyprotein / 0.957
3s54 017Protease / 0.956
4kb9 G79Protease / 0.956
2i4x KGQProtease / 0.947
3t3c 017Gag-Pol polyprotein 3.4.23.16 0.947
3dk1 G05Gag-Pol polyprotein 3.4.23.16 0.943
4hla 017Gag-Pol polyprotein 3.4.23.16 0.942
3nu6 478Gag-Pol polyprotein 3.4.23.16 0.934
2i4v DJRV-1 protease / 0.929
3ekv 478Gag-Pol polyprotein 3.4.23.16 0.924
3ec0 GRLGag-Pol polyprotein 3.4.23.47 0.915
4hdp G52Gag-Pol polyprotein 3.4.23.16 0.915
3em3 478Gag-Pol polyprotein 3.4.23.16 0.913
3sab F78Protease / 0.913
2hs2 017Protease / 0.912
3vf5 031Gag-Pol polyprotein 3.4.23.16 0.910
3vfb 031Gag-Pol polyprotein 3.4.23.16 0.909
3djk G55Gag-Pol polyprotein 3.4.23.16 0.904
4ye3 G04Gag-Pol polyprotein 3.4.23.16 0.898
3vf7 031Gag-Pol polyprotein 3.4.23.16 0.895
4djo MK5Pol polyprotein / 0.887
3o9g F53Gag-Pol polyprotein / 0.885
3bvb 017Gag-Pol polyprotein 3.4.23.16 0.877
3oxv 478Gag-Pol polyprotein 3.4.23.16 0.876
3gi4 K60Gag-Pol polyprotein / 0.868
3mxe K54Gag-Pol polyprotein 3.4.23.16 0.868
2fde 385Gag-Pol polyprotein 3.4.23.16 0.865
3i7e DJRGag-Pol polyprotein / 0.865
4j55 031Gag-Pol polyprotein 3.4.23.16 0.865
2qi5 MZ7Gag-Pol polyprotein / 0.862
3nu3 478Gag-Pol polyprotein 3.4.23.16 0.862
4j54 G52Gag-Pol polyprotein 3.4.23.16 0.862
1t7j 478Gag-Pol polyprotein 3.4.23.16 0.860
3nuo 478Gag-Pol polyprotein 3.4.23.16 0.856
4djr 0KJPol polyprotein / 0.854
1d4l PI9Gag-Pol polyprotein 3.4.23.16 0.852
3mxd K53Gag-Pol polyprotein 3.4.23.16 0.851
3nu4 478Gag-Pol polyprotein 3.4.23.16 0.849
3sa8 K83Protease / 0.848
1hpv 478Gag-Pol polyprotein / 0.846
2qi6 MZ8Gag-Pol polyprotein / 0.846
3sac AF8Protease / 0.845
4hdb G52Gag-Pol polyprotein 3.4.23.16 0.844
3nuj 478Gag-Pol polyprotein 3.4.23.16 0.842
4djq M86Pol polyprotein / 0.840
2qi4 MZ6Gag-Pol polyprotein / 0.836
3sm2 478Putative gag-pro-pol polyprotein / 0.835
3gi5 K62Gag-Pol polyprotein / 0.834
2qi7 MZ9Gag-Pol polyprotein / 0.832
1z1r HBHGag-Pol polyprotein 3.4.23.16 0.828
3sa4 F72Protease / 0.826
4rvj 478Protease / 0.826
4j5j 478Gag-Pol polyprotein 3.4.23.16 0.824
2qhy MZ1Gag-Pol polyprotein / 0.823
3gi6 D78Gag-Pol polyprotein / 0.822
2i0a MUIProtease / 0.821
2i4w KGQProtease / 0.818
2i4d QFIProtease / 0.813
3sa7 55AProtease / 0.811
1z1h HBBGag-Pol polyprotein 3.4.23.16 0.809
3nu5 478Gag-Pol polyprotein 3.4.23.16 0.808
3sa6 F71Protease / 0.808
3s43 478Protease / 0.804
2qi3 MZ5Gag-Pol polyprotein / 0.803
2qi0 MZ3Gag-Pol polyprotein / 0.796
3sa3 23XProtease / 0.782
4djp M73Pol polyprotein / 0.774
1hih C20Gag-Pol polyprotein / 0.772
3el9 DR7Gag-Pol polyprotein 3.4.23.16 0.772
2psu MUUProtease / 0.769
2i0d MUTProtease / 0.768
3k4v ROCGag-Pol polyprotein 3.4.23.16 0.768
1fg6 2NCGag-Pol polyprotein 3.4.23.16 0.767
2pym 1UNGag-Pol polyprotein 3.4.23.16 0.767
3d1y ROCGag-Pol polyprotein 3.4.23.16 0.767
2r3w G3GGag-Pol polyprotein 3.4.23.16 0.765
3eky DR7Gag-Pol polyprotein 3.4.23.16 0.765
3sa9 A68Protease / 0.762
2psv MUVProtease / 0.761
1fgc 2NCGag-Pol polyprotein 3.4.23.16 0.760
2pk6 O33V-1 protease / 0.760
1iiq 0ZRGag-Pol polyprotein 3.4.23.16 0.758
2qak 1UNGag-Pol polyprotein 3.4.23.16 0.756
3tl9 ROCGag-Pol polyprotein 3.4.23.16 0.756
4qgi ROCGag-Pol polyprotein 3.4.23.16 0.753
3oxx DR7Gag-Pol polyprotein 3.4.23.16 0.752
1mtr PI6Gag-Pol polyprotein 3.4.23.16 0.751
2nmy ROCProtease / 0.751
2fxe DR7Gag-Pol polyprotein 3.4.23.16 0.750
3saa 77FProtease / 0.750
3s56 ROCProtease / 0.749
1k6t XN1Gag-Pol polyprotein 3.4.23.16 0.747
3el4 ROCGag-Pol polyprotein 3.4.23.16 0.747
1b6l PI4Gag-Pol polyprotein 3.4.23.16 0.745
1ohr 1UNV-1 PROTEASE protein / 0.741
1ida 0POGag-Pol polyprotein 3.4.23.47 0.737
4fe6 0TQGag-Pol polyprotein 3.4.23.16 0.737
3dck KVIProtease / 0.736
3qp0 NI8Gag-Pol polyprotein 3.4.23.16 0.734
2aqu DR7Gag-Pol polyprotein 3.4.23.16 0.733
3el1 DR7Gag-Pol polyprotein 3.4.23.16 0.733
3nwq 2NCGag-Pol polyprotein 3.4.23.16 0.733
1ffi 2NCGag-Pol polyprotein 3.4.23.16 0.732
2qhz MZ2Gag-Pol polyprotein / 0.727
1npv L27Gag-Pol polyprotein 3.4.23.16 0.726
2aoe 0Q4Gag-Pol polyprotein 3.4.23.16 0.725
1dw6 0Q4Gag-Pol polyprotein 3.4.23.16 0.722
3nwx KVSGag-Pol polyprotein 3.4.23.16 0.722
1m0b 0ZQGag-Pol polyprotein 3.4.23.16 0.720
2p3a 3TLPol protein / 0.720
1sdu MK1Gag-Pol polyprotein 3.4.23.16 0.718
3kdb 006Gag-Pol polyprotein 3.4.23.16 0.718
3ufn ROCGag-Pol polyprotein / 0.718
1hvj A78Gag-Pol polyprotein / 0.717
3pwr ROCGag-Pol polyprotein 3.4.23.16 0.717
3s85 LK0Gag-Pol polyprotein / 0.717
3slz 3TLPutative gag-pro-pol polyprotein / 0.717
1k2b 0Q4Gag-Pol polyprotein 3.4.23.16 0.715
1fej 2NCGag-Pol polyprotein 3.4.23.16 0.714
2f3k RO1Protease / 0.714
3ndt ROCGag-Pol polyprotein 3.4.23.16 0.714
1izi Q50Gag-Pol polyprotein 3.4.23.16 0.713
2fle AIProtease / 0.713
2q63 1UNGag-Pol polyprotein 3.4.23.16 0.713
3cyx ROCGag-Pol polyprotein 3.4.23.16 0.712
3kfr 3TLGag-Pol polyprotein / 0.712
1d4j MSCGag-Pol polyprotein 3.4.23.16 0.711
1mrx K57Gag-Pol polyprotein 3.4.23.16 0.710
1pro A88Gag-Pol polyprotein / 0.710
2a1e IPFGag-Pol polyprotein 3.4.23.16 0.710
3sa5 A69Protease / 0.710
3kfs 3TLGag-Pol polyprotein / 0.707
1k2c 0Q4Gag-Pol polyprotein 3.4.23.16 0.705
1tcx IM1Gag-Pol polyprotein 3.4.23.16 0.705
2nnk ROCProtease / 0.704
1a8g 2Z4Gag-Pol polyprotein 3.4.23.16 0.702
2p3b 3TLV-1 PROTEASE protein / 0.702
2p3b 3TLV-1 protease / 0.702
1fff 0Q4Gag-Pol polyprotein 3.4.23.16 0.701
3ekw DR7Gag-Pol polyprotein 3.4.23.16 0.701
4gb2 0LQGag-Pol polyprotein 2.7.7.49 0.700
1ajv NMBGag-Pol polyprotein 3.4.23.16 0.699
2qhc AB1Protease / 0.698
1xl5 190Gag-Pol polyprotein 3.4.23.16 0.697
1b6m PI6Gag-Pol polyprotein 3.4.23.16 0.695
2b60 RITPol polyprotein / 0.695
2q54 MU1Protease / 0.694
2uy0 HV1Gag-Pol polyprotein 3.4.23.16 0.694
3ggx GGXGag-Pol polyprotein / 0.694
1ebz BECGag-Pol polyprotein 3.4.23.16 0.693
3el0 1UNGag-Pol polyprotein 3.4.23.16 0.693
4k4p 3TLGag-Pol polyprotein / 0.693
3d1x ROCGag-Pol polyprotein 3.4.23.16 0.692
3nyg 2NCGag-Pol polyprotein 3.4.23.16 0.692
1hvi A77Protease / 0.691
2bb9 AKCGag-Pol polyprotein 3.4.23.16 0.690
3bgc LJHGag-Pol polyprotein 3.4.23.16 0.690
1sdv MK1Gag-Pol polyprotein 3.4.23.16 0.689
2p3c 3TLProtease / 0.687
3hzc 2NCProtease / 0.687
2nnp ROCProtease / 0.686
1siv PSIGag-Pol polyprotein / 0.685
2fxd DR7Pol polyprotein / 0.685
3ekq ROCGag-Pol polyprotein 3.4.23.16 0.685
3kdc JZPGag-Pol polyprotein 3.4.23.16 0.685
1ec0 BEDGag-Pol polyprotein 3.4.23.16 0.684
1npa 3NHGag-Pol polyprotein 3.4.23.16 0.681
1npw LGZGag-Pol polyprotein 3.4.23.16 0.681
1hvk A79Gag-Pol polyprotein / 0.678
3ekp 478Gag-Pol polyprotein 3.4.23.16 0.678
1hvl A76Gag-Pol polyprotein / 0.677
1msn JE2Gag-Pol polyprotein 3.4.23.16 0.677
1zsr 0ZTGag-Pol polyprotein 3.4.23.16 0.676
1ody LP1Gag-Pol polyprotein 3.4.23.16 0.675
1sdt MK1Gag-Pol polyprotein 3.4.23.16 0.674
2r38 G4GGag-Pol polyprotein 3.4.23.16 0.674
1sh9 RITGag-Pol polyprotein 3.4.23.16 0.673
1hiv 1ZKGag-Pol polyprotein / 0.672
3em4 DR7Gag-Pol polyprotein 3.4.23.16 0.672
1wbm BLLPol protein / 0.669
1a94 0Q4Gag-Pol polyprotein 3.4.23.16 0.666
1ff0 2NCGag-Pol polyprotein 3.4.23.16 0.666
1rl8 RITGag-Pol polyprotein 3.4.23.16 0.666
2wl0 5AHGag-Pol polyprotein / 0.666
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.665
1wbk 568Pol protein / 0.665
3dcr KVSProtease / 0.665
1hii C20Gag-Pol polyprotein / 0.664
2z54 AB1Gag-Pol polyprotein 3.4.23.16 0.663
1ec3 MS3Gag-Pol polyprotein 3.4.23.16 0.660
1mrw K57Gag-Pol polyprotein 3.4.23.16 0.660
1k6p XN3Gag-Pol polyprotein 3.4.23.16 0.659
1zsf 0ZSGag-Pol polyprotein 3.4.23.16 0.659
3gga GGWGag-Pol polyprotein / 0.659
3i2l 2NCProtease / 0.657
3oxc ROCProtease / 0.656
1mes DMPGag-Pol polyprotein 3.4.23.16 0.655
1meu DMPGag-Pol polyprotein 3.4.23.16 0.654
3dm6 757Beta-secretase 1 3.4.23.46 0.654
1d4i BEGGag-Pol polyprotein 3.4.23.16 0.653
1d4k PI8Gag-Pol polyprotein 3.4.23.16 0.653
2rkf AB1Pol protein / 0.653
1eag A70Candidapepsin-2 3.4.23.24 0.652
3ogq AB1Pol polyprotein / 0.652
1fg8 0Q4Gag-Pol polyprotein 3.4.23.16 0.651
1hos PHPGag-Pol polyprotein / 0.650
2pk5 075Protease / 0.650
3bva 2NCGag-Pol polyprotein 3.4.23.16 0.650