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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
2vnn CM7 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2vnn CM7Beta-secretase 1 3.4.23.46 1.331
2vnm CM8Beta-secretase 1 3.4.23.46 1.239
2vj7 VG6Beta-secretase 1 3.4.23.46 1.192
2wf0 ZY0Beta-secretase 1 3.4.23.46 1.157
2wf1 ZY1Beta-secretase 1 3.4.23.46 1.113
2xfj VG5Beta-secretase 1 3.4.23.46 1.107
2vj6 VG5Beta-secretase 1 3.4.23.46 1.096
2viz VG4Beta-secretase 1 3.4.23.46 1.088
2wf2 ZY2Beta-secretase 1 3.4.23.46 1.087
2wez ZYEBeta-secretase 1 3.4.23.46 1.078
2vie VG0Beta-secretase 1 3.4.23.46 1.074
2wf3 ZY3Beta-secretase 1 3.4.23.46 1.060
2wf4 ZY4Beta-secretase 1 3.4.23.46 1.056
2vij C44Beta-secretase 1 3.4.23.46 1.054
2xfk AA9Beta-secretase 1 3.4.23.46 1.044
2viy VG3Beta-secretase 1 3.4.23.46 1.031
2xfi XFIBeta-secretase 1 3.4.23.46 1.012
4dpf 0LGBeta-secretase 1 3.4.23.46 0.999
2vj9 VG7Beta-secretase 1 3.4.23.46 0.997
4fco 0U4Beta-secretase 1 3.4.23.46 0.994
2b8l 5HABeta-secretase 1 3.4.23.46 0.986
4k9h 1QUBeta-secretase 1 3.4.23.46 0.956
3k5g BJCBeta-secretase 1 3.4.23.46 0.955
2b8v 3BNBeta-secretase 1 3.4.23.46 0.948
2p8h MY9Beta-secretase 1 3.4.23.46 0.942
3veu 0GOBeta-secretase 1 3.4.23.46 0.942
4dpi 0N1Beta-secretase 1 3.4.23.46 0.924
4ewo 996Beta-secretase 1 3.4.23.46 0.910
4exg 916Beta-secretase 1 3.4.23.46 0.906
3nsh 957Beta-secretase 1 3.4.23.46 0.904
4i0i 957Beta-secretase 1 3.4.23.46 0.904
2iqg F2IBeta-secretase 1 3.4.23.46 0.901
2qzl IXSBeta-secretase 1 3.4.23.46 0.899
3k5c 0BIBeta-secretase 1 3.4.23.46 0.892
2vkm BSDBeta-secretase 1 3.4.23.46 0.875
3ohf 3HFBeta-secretase 1 3.4.23.46 0.874
2p83 MR0Beta-secretase 1 3.4.23.46 0.868
3i25 MV7Beta-secretase 1 3.4.23.46 0.854
4ke1 1R6Beta-secretase 1 3.4.23.46 0.849
3cid 318Beta-secretase 1 3.4.23.46 0.847
3qi1 C6ABeta-secretase 1 3.4.23.46 0.843
3ohh 3HHBeta-secretase 1 3.4.23.46 0.841
4ke0 1R8Beta-secretase 1 3.4.23.46 0.841
3dv5 BAVBeta-secretase 1 3.4.23.46 0.834
1w51 L01Beta-secretase 1 3.4.23.46 0.832
4gid 0GHBeta-secretase 1 3.4.23.46 0.832
3lpk Z76Beta-secretase 1 3.4.23.46 0.830
4dus 0MPBeta-secretase 1 3.4.23.46 0.830
3pi5 3P5Beta-secretase 1 3.4.23.46 0.819
3lpj Z75Beta-secretase 1 3.4.23.46 0.816
3cic 316Beta-secretase 1 3.4.23.46 0.809
4lxm 1YUBeta-secretase 1 3.4.23.46 0.805
4lxa 1YSBeta-secretase 1 3.4.23.46 0.803
4lxk 1YTBeta-secretase 1 3.4.23.46 0.800
3r2f PB0Beta-secretase 1 3.4.23.46 0.794
3cib 314Beta-secretase 1 3.4.23.46 0.789
3ixk 929Beta-secretase 1 3.4.23.46 0.788
3qbh QBHBeta-secretase 1 3.4.23.46 0.784
2hiz LIJBeta-secretase 1 3.4.23.46 0.783
2hm1 LIQBeta-secretase 1 3.4.23.46 0.780
4dh6 0KNBeta-secretase 1 3.4.23.46 0.776
3lpi Z74Beta-secretase 1 3.4.23.46 0.771
2oah QINBeta-secretase 1 3.4.23.46 0.757
3dv1 AR9Beta-secretase 1 3.4.23.46 0.754
2g94 ZPQBeta-secretase 1 3.4.23.46 0.749
2f3e AXQBeta-secretase 1 3.4.23.46 0.729
4i0h 1BLBeta-secretase 1 3.4.23.46 0.721
3vg1 0GTBeta-secretase 1 3.4.23.46 0.719
2f3f AXFBeta-secretase 1 3.4.23.46 0.717
2p4j 23IBeta-secretase 1 3.4.23.46 0.707
3vf3 0GSBeta-secretase 1 3.4.23.46 0.695
3k5d XLIBeta-secretase 1 3.4.23.46 0.688
3duy AFJBeta-secretase 1 3.4.23.46 0.684
2ntr L00Beta-secretase 1 3.4.23.46 0.677
2fdp FRPBeta-secretase 1 3.4.23.46 0.675
4k8s 1QTBeta-secretase 1 3.4.23.46 0.674
3n4l 842Beta-secretase 1 3.4.23.46 0.673
4d89 BXDBeta-secretase 1 3.4.23.46 0.666
2uxz HI1Gag-Pol polyprotein 3.4.23.16 0.659
3ixj 586Beta-secretase 1 3.4.23.46 0.659
1zsf 0ZSGag-Pol polyprotein 3.4.23.16 0.655
3skg PB8Beta-secretase 1 3.4.23.46 0.655
1b6k PI5Gag-Pol polyprotein 3.4.23.16 0.654
1qrp HH0Pepsin A-4 3.4.23.1 0.654
1xe6 5FPPlasmepsin-2 3.4.23.39 0.651