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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
2vj6 VG5 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2vj6 VG5Beta-secretase 1 3.4.23.46 1.427
2xfj VG5Beta-secretase 1 3.4.23.46 1.389
2viz VG4Beta-secretase 1 3.4.23.46 1.347
2xfk AA9Beta-secretase 1 3.4.23.46 1.228
2vj7 VG6Beta-secretase 1 3.4.23.46 1.214
2viy VG3Beta-secretase 1 3.4.23.46 1.209
2vj9 VG7Beta-secretase 1 3.4.23.46 1.174
2xfi XFIBeta-secretase 1 3.4.23.46 1.173
2vnm CM8Beta-secretase 1 3.4.23.46 1.163
2vie VG0Beta-secretase 1 3.4.23.46 1.137
2wf0 ZY0Beta-secretase 1 3.4.23.46 1.131
2wez ZYEBeta-secretase 1 3.4.23.46 1.121
2vij C44Beta-secretase 1 3.4.23.46 1.117
2vnn CM7Beta-secretase 1 3.4.23.46 1.096
2wf1 ZY1Beta-secretase 1 3.4.23.46 1.073
2wf4 ZY4Beta-secretase 1 3.4.23.46 1.058
2wf2 ZY2Beta-secretase 1 3.4.23.46 1.055
4fco 0U4Beta-secretase 1 3.4.23.46 1.037
2wf3 ZY3Beta-secretase 1 3.4.23.46 1.035
2b8l 5HABeta-secretase 1 3.4.23.46 1.024
2b8v 3BNBeta-secretase 1 3.4.23.46 1.002
2p8h MY9Beta-secretase 1 3.4.23.46 0.993
4ewo 996Beta-secretase 1 3.4.23.46 0.958
4dpf 0LGBeta-secretase 1 3.4.23.46 0.922
4k9h 1QUBeta-secretase 1 3.4.23.46 0.914
2iqg F2IBeta-secretase 1 3.4.23.46 0.906
3i25 MV7Beta-secretase 1 3.4.23.46 0.904
3nsh 957Beta-secretase 1 3.4.23.46 0.901
4i0i 957Beta-secretase 1 3.4.23.46 0.901
2p83 MR0Beta-secretase 1 3.4.23.46 0.892
4dus 0MPBeta-secretase 1 3.4.23.46 0.888
3k5c 0BIBeta-secretase 1 3.4.23.46 0.887
3k5g BJCBeta-secretase 1 3.4.23.46 0.886
3veu 0GOBeta-secretase 1 3.4.23.46 0.883
3dm6 757Beta-secretase 1 3.4.23.46 0.881
2vkm BSDBeta-secretase 1 3.4.23.46 0.876
3ohf 3HFBeta-secretase 1 3.4.23.46 0.874
2qzl IXSBeta-secretase 1 3.4.23.46 0.873
4gid 0GHBeta-secretase 1 3.4.23.46 0.862
3cic 316Beta-secretase 1 3.4.23.46 0.860
4dpi 0N1Beta-secretase 1 3.4.23.46 0.858
2hiz LIJBeta-secretase 1 3.4.23.46 0.854
3cid 318Beta-secretase 1 3.4.23.46 0.852
3cib 314Beta-secretase 1 3.4.23.46 0.846
4k8s 1QTBeta-secretase 1 3.4.23.46 0.844
3ohh 3HHBeta-secretase 1 3.4.23.46 0.839
3ixj 586Beta-secretase 1 3.4.23.46 0.838
3lpj Z75Beta-secretase 1 3.4.23.46 0.831
1w51 L01Beta-secretase 1 3.4.23.46 0.826
4i0h 1BLBeta-secretase 1 3.4.23.46 0.819
2oah QINBeta-secretase 1 3.4.23.46 0.813
4exg 916Beta-secretase 1 3.4.23.46 0.807
3dv5 BAVBeta-secretase 1 3.4.23.46 0.792
3r2f PB0Beta-secretase 1 3.4.23.46 0.789
3qbh QBHBeta-secretase 1 3.4.23.46 0.783
3ixk 929Beta-secretase 1 3.4.23.46 0.782
3pi5 3P5Beta-secretase 1 3.4.23.46 0.780
3pww ROCEndothiapepsin 3.4.23.22 0.780
3dv1 AR9Beta-secretase 1 3.4.23.46 0.775
3tpr 5HABeta-secretase 1 3.4.23.46 0.773
3vf3 0GSBeta-secretase 1 3.4.23.46 0.769
3vg1 0GTBeta-secretase 1 3.4.23.46 0.735
4ke1 1R6Beta-secretase 1 3.4.23.46 0.725
1gvv 0GMEndothiapepsin 3.4.23.22 0.720
2f3f AXFBeta-secretase 1 3.4.23.46 0.717
1gvw 0EMEndothiapepsin 3.4.23.22 0.715
3duy AFJBeta-secretase 1 3.4.23.46 0.715
3k5d XLIBeta-secretase 1 3.4.23.46 0.713
2f3e AXQBeta-secretase 1 3.4.23.46 0.708
2jjj 0QSEndothiapepsin 3.4.23.22 0.704
2hm1 LIQBeta-secretase 1 3.4.23.46 0.694
3lpi Z74Beta-secretase 1 3.4.23.46 0.686
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.678
2ph6 712Beta-secretase 1 3.4.23.46 0.676
2fdp FRPBeta-secretase 1 3.4.23.46 0.674
3own 3OWRenin 3.4.23.15 0.672
1xe6 5FPPlasmepsin-2 3.4.23.39 0.670
1od1 0QSEndothiapepsin 3.4.23.22 0.668
2ntr L00Beta-secretase 1 3.4.23.46 0.667
3lpk Z76Beta-secretase 1 3.4.23.46 0.666
1psa 0ZLPepsin A 3.4.23.1 0.663
1w6h TITPlasmepsin-2 3.4.23.39 0.663
4lxm 1YUBeta-secretase 1 3.4.23.46 0.663
3l5e BDWBeta-secretase 1 3.4.23.46 0.657
1zsf 0ZSGag-Pol polyprotein 3.4.23.16 0.656
4ke0 1R8Beta-secretase 1 3.4.23.46 0.656
1odx 0E8Gag-Pol polyprotein 3.4.23.16 0.653
1b6k PI5Gag-Pol polyprotein 3.4.23.16 0.651