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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
2bpv 1IN Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2bpv 1INGag-Pol polyprotein 3.4.23.16 1.195
2bpw 1INGag-Pol polyprotein 3.4.23.16 1.015
1hsg MK1Gag-Pol polyprotein / 0.955
2bpy 3INGag-Pol polyprotein 3.4.23.16 0.954
1c70 L75Protease / 0.888
1k6v XN2Gag-Pol polyprotein 3.4.23.16 0.859
1hsh MK1Gag-Pol polyprotein / 0.853
2avv MK1Gag-Pol polyprotein 3.4.23.16 0.823
2bpz 3INGag-Pol polyprotein 3.4.23.16 0.810
1k6p XN3Gag-Pol polyprotein 3.4.23.16 0.809
2a1e IPFGag-Pol polyprotein 3.4.23.16 0.798
1sdt MK1Gag-Pol polyprotein 3.4.23.16 0.793
3ndu ROCGag-Pol polyprotein 3.4.23.16 0.786
3el5 1UNGag-Pol polyprotein / 0.779
1k6c MK1Gag-Pol polyprotein 3.4.23.16 0.778
1sbg IM1Gag-Pol polyprotein / 0.763
3d1x ROCGag-Pol polyprotein 3.4.23.16 0.757
2bpx MK1Gag-Pol polyprotein 3.4.23.16 0.753
2f3k RO1Protease / 0.739
2r5q 1UNGag-Pol polyprotein / 0.735
1mtr PI6Gag-Pol polyprotein 3.4.23.16 0.730
3fx5 KNIGag-Pol polyprotein 3.4.23.16 0.728
1ec1 BEEGag-Pol polyprotein 3.4.23.16 0.719
3nwx KVSGag-Pol polyprotein 3.4.23.16 0.715
3bxr DRRGag-Pol polyprotein 3.4.23.16 0.711
2pk5 075Protease / 0.710
3bvb 017Gag-Pol polyprotein 3.4.23.16 0.705
1fff 0Q4Gag-Pol polyprotein 3.4.23.16 0.704
1ffi 2NCGag-Pol polyprotein 3.4.23.16 0.704
1fg6 2NCGag-Pol polyprotein 3.4.23.16 0.704
3k4v ROCGag-Pol polyprotein 3.4.23.16 0.704
1d4h BEHGag-Pol polyprotein 3.4.23.16 0.702
1wbk 568Pol protein / 0.698
3el4 ROCGag-Pol polyprotein 3.4.23.16 0.696
1a8g 2Z4Gag-Pol polyprotein 3.4.23.16 0.693
3em4 DR7Gag-Pol polyprotein 3.4.23.16 0.693
2nnk ROCProtease / 0.691
1ebz BECGag-Pol polyprotein 3.4.23.16 0.690
1hpx KNIGag-Pol polyprotein / 0.688
2avs MK1Gag-Pol polyprotein 3.4.23.16 0.688
2hs1 017Protease / 0.688
3s54 017Protease / 0.688
1c6y MK1Protease / 0.686
2nnp ROCProtease / 0.686
2uy0 HV1Gag-Pol polyprotein 3.4.23.16 0.684
1izi Q50Gag-Pol polyprotein 3.4.23.16 0.683
1c6x 3INProtease / 0.682
3pwr ROCGag-Pol polyprotein 3.4.23.16 0.682
3tof 076Gag-Pol polyprotein 2.7.7.49 0.681
1fg8 0Q4Gag-Pol polyprotein 3.4.23.16 0.679
1msm JE2Gag-Pol polyprotein 3.4.23.16 0.678
3cyw 017Gag-Pol polyprotein 3.4.23.16 0.678
2qhc AB1Protease / 0.676
1mrx K57Gag-Pol polyprotein 3.4.23.16 0.675
2wl0 5AHGag-Pol polyprotein / 0.675
3ekp 478Gag-Pol polyprotein 3.4.23.16 0.675
3ucb 017Gag-Pol polyprotein / 0.674
3ndt ROCGag-Pol polyprotein 3.4.23.16 0.673
3oxc ROCProtease / 0.673
1ec0 BEDGag-Pol polyprotein 3.4.23.16 0.672
1ec3 MS3Gag-Pol polyprotein 3.4.23.16 0.668
1k2c 0Q4Gag-Pol polyprotein 3.4.23.16 0.668
1k2b 0Q4Gag-Pol polyprotein 3.4.23.16 0.667
2rkf AB1Pol protein / 0.665
4qgi ROCGag-Pol polyprotein 3.4.23.16 0.664
2p3c 3TLProtease / 0.662
1tcx IM1Gag-Pol polyprotein 3.4.23.16 0.656
3ekq ROCGag-Pol polyprotein 3.4.23.16 0.655
3kf0 3TLGag-Pol polyprotein / 0.655
1mrw K57Gag-Pol polyprotein 3.4.23.16 0.653
1t7j 478Gag-Pol polyprotein 3.4.23.16 0.653
1dw6 0Q4Gag-Pol polyprotein 3.4.23.16 0.650