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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
1t3r 017 Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
1t3r 017Gag-Pol polyprotein 3.4.23.16 1.335
3oy4 017Gag-Pol polyprotein 3.4.23.16 1.275
3o9e A60Pol polyprotein / 1.273
3o9a K14Pol polyprotein / 1.268
3o9b K2APol polyprotein / 1.268
4q1w 017Gag-Pol polyprotein 3.4.23.16 1.268
3lzv 017Gag-Pol polyprotein 3.4.23.16 1.262
4dqb 017Gag-Pol polyprotein / 1.251
4dqe 017Gag-Pol polyprotein / 1.244
4dqh 017Gag-Pol polyprotein / 1.240
3o99 K13Pol polyprotein / 1.236
3o9g F53Gag-Pol polyprotein / 1.224
3o9c K20Pol polyprotein / 1.220
3o9d K19Pol polyprotein / 1.215
4dqf 017Gag-Pol polyprotein / 1.215
4q1y 017Gag-Pol polyprotein 3.4.23.16 1.202
4dqc 017Gag-Pol polyprotein / 1.199
2qd7 065Gag-Pol polyprotein 3.4.23.16 1.194
1t7i 017Gag-Pol polyprotein 3.4.23.16 1.193
3o9f K2DGag-Pol polyprotein / 1.190
2f80 017Gag-Pol polyprotein 3.4.23.16 1.169
3d20 017Gag-Pol polyprotein 3.4.23.16 1.169
2hb3 GRLProtease / 1.164
3o9h K2EGag-Pol polyprotein / 1.164
4njs G08Protease / 1.164
3pwm 017Gag-Pol polyprotein 3.4.23.16 1.163
2idw 017Protease / 1.160
3o9i A61Gag-Pol polyprotein / 1.155
3ecg 065Gag-Pol polyprotein 3.4.23.47 1.144
2qci 065Gag-Pol polyprotein 3.4.23.16 1.140
3ekv 478Gag-Pol polyprotein 3.4.23.16 1.139
4q1x 017Gag-Pol polyprotein 3.4.23.16 1.136
3em6 017Gag-Pol polyprotein 3.4.23.16 1.133
3d1z 017Gag-Pol polyprotein 3.4.23.16 1.132
2f81 017Gag-Pol polyprotein 3.4.23.16 1.127
3t3c 017Gag-Pol polyprotein 3.4.23.16 1.119
4heg G52Gag-Pol polyprotein 3.4.23.16 1.116
3dk1 G05Gag-Pol polyprotein 3.4.23.16 1.110
2ien 017Gag-Pol polyprotein 3.4.23.16 1.100
3oxw 017Gag-Pol polyprotein 3.4.23.16 1.100
3sa8 K83Protease / 1.100
2i4u DJRProtease / 1.093
4njt 017Protease / 1.085
3ucb 017Gag-Pol polyprotein / 1.082
2qi4 MZ6Gag-Pol polyprotein / 1.081
2hs1 017Protease / 1.080
2i0a MUIProtease / 1.078
2ieo 017Protease / 1.072
3vf7 031Gag-Pol polyprotein 3.4.23.16 1.071
3r4b 74TGag-Pol polyprotein / 1.066
3ok9 G52Gag-Pol polyprotein 3.4.23.16 1.065
3jvy 017Gag-Pol polyprotein 3.4.23.16 1.062
3gi4 K60Gag-Pol polyprotein / 1.059
3vf5 031Gag-Pol polyprotein 3.4.23.16 1.053
2qi6 MZ8Gag-Pol polyprotein / 1.052
2i4d QFIProtease / 1.050
4djp M73Pol polyprotein / 1.050
3djk G55Gag-Pol polyprotein 3.4.23.16 1.049
3lzu 017Gag-Pol polyprotein 3.4.23.16 1.048
3mws 017Pol protein / 1.048
2f8g 017Gag-Pol polyprotein 3.4.23.16 1.047
2z4o 065Gag-Pol polyprotein 3.4.23.16 1.043
3nu9 478Gag-Pol polyprotein 3.4.23.16 1.042
3mxd K53Gag-Pol polyprotein 3.4.23.16 1.041
4djo MK5Pol polyprotein / 1.041
2qd6 065Gag-Pol polyprotein 3.4.23.16 1.040
3st5 G89Gag-Pol polyprotein 3.4.23.16 1.040
2psu MUUProtease / 1.038
2qd8 065Gag-Pol polyprotein 3.4.23.16 1.037
3mxe K54Gag-Pol polyprotein 3.4.23.16 1.028
3vfa 031Gag-Pol polyprotein 3.4.23.16 1.028
3em3 478Gag-Pol polyprotein 3.4.23.16 1.027
4djq M86Pol polyprotein / 1.026
4j54 G52Gag-Pol polyprotein 3.4.23.16 1.024
3i6o GR6Gag-Pol polyprotein 3.4.23.16 1.019
3qaa G04Gag-Pol polyprotein 3.4.23.16 1.019
3saa 77FProtease / 1.017
4hdf G52Gag-Pol polyprotein 3.4.23.16 1.017
4hdp G52Gag-Pol polyprotein 3.4.23.16 1.015
2qi0 MZ3Gag-Pol polyprotein / 1.009
3cyw 017Gag-Pol polyprotein 3.4.23.16 1.009
3sa4 F72Protease / 1.009
2qi7 MZ9Gag-Pol polyprotein / 1.008
3ec0 GRLGag-Pol polyprotein 3.4.23.47 1.007
3oxv 478Gag-Pol polyprotein 3.4.23.16 1.007
3bvb 017Gag-Pol polyprotein 3.4.23.16 1.003
3s54 017Protease / 1.001
2i4x KGQProtease / 0.999
4kb9 G79Protease / 0.999
3ekt 017Gag-Pol polyprotein 3.4.23.16 0.998
3gi6 D78Gag-Pol polyprotein / 0.998
3nuo 478Gag-Pol polyprotein 3.4.23.16 0.996
3sab F78Protease / 0.996
3nu4 478Gag-Pol polyprotein 3.4.23.16 0.992
3sa9 A68Protease / 0.990
2fdd 385Pol protein / 0.989
2i4v DJRV-1 protease / 0.988
4hdb G52Gag-Pol polyprotein 3.4.23.16 0.987
2hs2 017Protease / 0.985
3vfb 031Gag-Pol polyprotein 3.4.23.16 0.983
3lzs 017Gag-Pol polyprotein 3.4.23.16 0.981
3ggu 017Gag-Pol polyprotein 3.4.23.16 0.980
4djr 0KJPol polyprotein / 0.979
3gi5 K62Gag-Pol polyprotein / 0.975
3nuj 478Gag-Pol polyprotein 3.4.23.16 0.969
3nu6 478Gag-Pol polyprotein 3.4.23.16 0.967
2i4w KGQProtease / 0.964
3jw2 017Gag-Pol polyprotein 3.4.23.16 0.964
3sac AF8Protease / 0.964
3sa7 55AProtease / 0.963
2i0d MUTProtease / 0.958
2qhy MZ1Gag-Pol polyprotein / 0.952
4rvj 478Protease / 0.943
3nu5 478Gag-Pol polyprotein 3.4.23.16 0.942
3nu3 478Gag-Pol polyprotein 3.4.23.16 0.941
2qi5 MZ7Gag-Pol polyprotein / 0.937
3sa3 23XProtease / 0.931
4j55 031Gag-Pol polyprotein 3.4.23.16 0.929
4j5j 478Gag-Pol polyprotein 3.4.23.16 0.929
4ye3 G04Gag-Pol polyprotein 3.4.23.16 0.929
4dfg 0JVGag-Pol polyprotein 3.4.23.16 0.927
3sa6 F71Protease / 0.918
3ttp 017Gag-Pol polyprotein 3.4.23.16 0.917
1z1r HBHGag-Pol polyprotein 3.4.23.16 0.915
3i7e DJRGag-Pol polyprotein / 0.915
1d4l PI9Gag-Pol polyprotein 3.4.23.16 0.914
2qi3 MZ5Gag-Pol polyprotein / 0.911
4i8z G08Gag-Pol polyprotein 3.4.23.16 0.907
4hla 017Gag-Pol polyprotein 3.4.23.16 0.900
3s43 478Protease / 0.888
3sm2 478Putative gag-pro-pol polyprotein / 0.874
1t7j 478Gag-Pol polyprotein 3.4.23.16 0.857
2qhz MZ2Gag-Pol polyprotein / 0.853
1z1h HBBGag-Pol polyprotein 3.4.23.16 0.847
2psv MUVProtease / 0.846
1hpv 478Gag-Pol polyprotein / 0.833
2fde 385Gag-Pol polyprotein 3.4.23.16 0.831
2qi1 MZ4Gag-Pol polyprotein / 0.823
3sa5 A69Protease / 0.820
3oxx DR7Gag-Pol polyprotein 3.4.23.16 0.816
3eky DR7Gag-Pol polyprotein 3.4.23.16 0.811
1xl5 190Gag-Pol polyprotein 3.4.23.16 0.807
1b6l PI4Gag-Pol polyprotein 3.4.23.16 0.804
1npv L27Gag-Pol polyprotein 3.4.23.16 0.802
3k4v ROCGag-Pol polyprotein 3.4.23.16 0.793
3el9 DR7Gag-Pol polyprotein 3.4.23.16 0.791
3s85 LK0Gag-Pol polyprotein / 0.789
2nmy ROCProtease / 0.786
2aqu DR7Gag-Pol polyprotein 3.4.23.16 0.780
2bb9 AKCGag-Pol polyprotein 3.4.23.16 0.779
3em4 DR7Gag-Pol polyprotein 3.4.23.16 0.773
1yt9 OISGag-Pol polyprotein / 0.768
1ida 0POGag-Pol polyprotein 3.4.23.47 0.764
1npa 3NHGag-Pol polyprotein 3.4.23.16 0.762
1npw LGZGag-Pol polyprotein 3.4.23.16 0.762
2p3b 3TLV-1 PROTEASE protein / 0.760
2p3b 3TLV-1 protease / 0.760
3s56 ROCProtease / 0.757
1bdr IM1Gag-Pol polyprotein 3.4.23.16 0.755
1iiq 0ZRGag-Pol polyprotein 3.4.23.16 0.755
2q63 1UNGag-Pol polyprotein 3.4.23.16 0.755
2qak 1UNGag-Pol polyprotein 3.4.23.16 0.754
3ufn ROCGag-Pol polyprotein / 0.754
3ndt ROCGag-Pol polyprotein 3.4.23.16 0.753
1hih C20Gag-Pol polyprotein / 0.751
1fff 0Q4Gag-Pol polyprotein 3.4.23.16 0.748
3tl9 ROCGag-Pol polyprotein 3.4.23.16 0.748
2fxe DR7Gag-Pol polyprotein 3.4.23.16 0.747
3el0 1UNGag-Pol polyprotein 3.4.23.16 0.746
3d1x ROCGag-Pol polyprotein 3.4.23.16 0.745
1izh Q50Protease / 0.742
1siv PSIGag-Pol polyprotein / 0.742
3kfr 3TLGag-Pol polyprotein / 0.741
3el4 ROCGag-Pol polyprotein 3.4.23.16 0.739
1hvi A77Protease / 0.738
1pro A88Gag-Pol polyprotein / 0.735
2avs MK1Gag-Pol polyprotein 3.4.23.16 0.734
2rkg AB1Pol protein / 0.734
1mrw K57Gag-Pol polyprotein 3.4.23.16 0.733
3cyx ROCGag-Pol polyprotein 3.4.23.16 0.731
1ohr 1UNV-1 PROTEASE protein / 0.730
1sdt MK1Gag-Pol polyprotein 3.4.23.16 0.730
3nyg 2NCGag-Pol polyprotein 3.4.23.16 0.730
3slz 3TLPutative gag-pro-pol polyprotein / 0.727
4qgi ROCGag-Pol polyprotein 3.4.23.16 0.725
3bxr DRRGag-Pol polyprotein 3.4.23.16 0.723
3el1 DR7Gag-Pol polyprotein 3.4.23.16 0.721
3pwr ROCGag-Pol polyprotein 3.4.23.16 0.720
2pk6 O33V-1 protease / 0.719
3d1y ROCGag-Pol polyprotein 3.4.23.16 0.719
1tcx IM1Gag-Pol polyprotein 3.4.23.16 0.718
1sdv MK1Gag-Pol polyprotein 3.4.23.16 0.714
3kfs 3TLGag-Pol polyprotein / 0.712
2nnp ROCProtease / 0.711
2avv MK1Gag-Pol polyprotein 3.4.23.16 0.710
1bv7 XV6Gag-Pol polyprotein 3.4.23.16 0.709
2p3a 3TLPol protein / 0.707
1izi Q50Gag-Pol polyprotein 3.4.23.16 0.706
2hc0 AB2Protease / 0.706
3kf0 3TLGag-Pol polyprotein / 0.705
1b6m PI6Gag-Pol polyprotein 3.4.23.16 0.704
3so9 017Pol protein / 0.702
1a8g 2Z4Gag-Pol polyprotein 3.4.23.16 0.701
1hpx KNIGag-Pol polyprotein / 0.701
3ekw DR7Gag-Pol polyprotein 3.4.23.16 0.701
3ekq ROCGag-Pol polyprotein 3.4.23.16 0.700
2aoe 0Q4Gag-Pol polyprotein 3.4.23.16 0.698
2pym 1UNGag-Pol polyprotein 3.4.23.16 0.698
1k2b 0Q4Gag-Pol polyprotein 3.4.23.16 0.697
2f3k RO1Protease / 0.695
2p3c 3TLProtease / 0.695
3fx5 KNIGag-Pol polyprotein 3.4.23.16 0.695
1hvr XK2Gag-Pol polyprotein / 0.694
4njv RITProtease / 0.693
1dw6 0Q4Gag-Pol polyprotein 3.4.23.16 0.688
2nnk ROCProtease / 0.688
3gga GGWGag-Pol polyprotein / 0.688
1a94 0Q4Gag-Pol polyprotein 3.4.23.16 0.686
3kdb 006Gag-Pol polyprotein 3.4.23.16 0.686
2p3d 3TLProtease / 0.685
2wl0 5AHGag-Pol polyprotein / 0.684
1k6t XN1Gag-Pol polyprotein 3.4.23.16 0.683
2avm 2NCGag-Pol polyprotein 3.4.23.16 0.683
1ivq 0PXGag-Pol polyprotein / 0.679
1jld 0PPGag-Pol polyprotein / 0.679
1k2c 0Q4Gag-Pol polyprotein 3.4.23.16 0.679
2a1e IPFGag-Pol polyprotein 3.4.23.16 0.679
2cem 2AHPol protein / 0.679
1hsg MK1Gag-Pol polyprotein / 0.678
1mtr PI6Gag-Pol polyprotein 3.4.23.16 0.678
1qbr XV6Gag-Pol polyprotein 3.4.23.16 0.678
1b6k PI5Gag-Pol polyprotein 3.4.23.16 0.677
1sdu MK1Gag-Pol polyprotein 3.4.23.16 0.675
1hiv 1ZKGag-Pol polyprotein / 0.674
1mrx K57Gag-Pol polyprotein 3.4.23.16 0.674
3aid ARQGag-Pol polyprotein 3.4.23.16 0.673
3dm6 757Beta-secretase 1 3.4.23.46 0.673
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.672
1bwa XV6Gag-Pol polyprotein 3.4.23.16 0.672
1ec1 BEEGag-Pol polyprotein 3.4.23.16 0.671
3nxe 2NCProtease / 0.671
1hsh MK1Gag-Pol polyprotein / 0.670
2pqz G0GGag-Pol polyprotein 3.4.23.16 0.668
2q64 1UNGag-Pol polyprotein 3.4.23.16 0.667
2rkf AB1Pol protein / 0.666
1d4k PI8Gag-Pol polyprotein 3.4.23.16 0.665
2upj U02Gag-Pol polyprotein 3.4.23.16 0.664
3ixj 586Beta-secretase 1 3.4.23.46 0.664
2bqv A1AProtease / 0.662
1d4j MSCGag-Pol polyprotein 3.4.23.16 0.661
2b60 RITPol polyprotein / 0.661
2q54 MU1Protease / 0.660
1hvj A78Gag-Pol polyprotein / 0.659
2pyn 1UNGag-Pol polyprotein 3.4.23.16 0.658
3jvw DMPGag-Pol polyprotein 3.4.23.16 0.657
2qnp QN2Gag-Pol polyprotein 3.4.23.16 0.656
1d4i BEGGag-Pol polyprotein 3.4.23.16 0.655
1ffi 2NCGag-Pol polyprotein 3.4.23.16 0.655
1fg6 2NCGag-Pol polyprotein 3.4.23.16 0.654
1fgc 2NCGag-Pol polyprotein 3.4.23.16 0.654
1k1u 0Q4Gag-Pol polyprotein 3.4.23.16 0.654
2cej 1AHPol protein / 0.654
2z54 AB1Gag-Pol polyprotein 3.4.23.16 0.654
1hos PHPGag-Pol polyprotein / 0.653
1fej 2NCGag-Pol polyprotein 3.4.23.16 0.650
2qhc AB1Protease / 0.650
2xyf G40Gag-Pol polyprotein / 0.650
4xrq 1B0Gag polyprotein / 0.650