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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
2xfj VG5 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2xfj VG5Beta-secretase 1 3.4.23.46 1.463
2vj6 VG5Beta-secretase 1 3.4.23.46 1.389
2viz VG4Beta-secretase 1 3.4.23.46 1.368
2xfk AA9Beta-secretase 1 3.4.23.46 1.231
2vj7 VG6Beta-secretase 1 3.4.23.46 1.227
2viy VG3Beta-secretase 1 3.4.23.46 1.208
2vj9 VG7Beta-secretase 1 3.4.23.46 1.173
2xfi XFIBeta-secretase 1 3.4.23.46 1.173
2wf0 ZY0Beta-secretase 1 3.4.23.46 1.161
2vnm CM8Beta-secretase 1 3.4.23.46 1.148
2vie VG0Beta-secretase 1 3.4.23.46 1.135
2wez ZYEBeta-secretase 1 3.4.23.46 1.125
2vnn CM7Beta-secretase 1 3.4.23.46 1.107
2vij C44Beta-secretase 1 3.4.23.46 1.103
2wf2 ZY2Beta-secretase 1 3.4.23.46 1.088
2wf1 ZY1Beta-secretase 1 3.4.23.46 1.061
4fco 0U4Beta-secretase 1 3.4.23.46 1.052
2wf3 ZY3Beta-secretase 1 3.4.23.46 1.050
2b8l 5HABeta-secretase 1 3.4.23.46 1.034
2wf4 ZY4Beta-secretase 1 3.4.23.46 1.028
2p8h MY9Beta-secretase 1 3.4.23.46 0.999
2b8v 3BNBeta-secretase 1 3.4.23.46 0.984
4ewo 996Beta-secretase 1 3.4.23.46 0.956
2iqg F2IBeta-secretase 1 3.4.23.46 0.921
4k9h 1QUBeta-secretase 1 3.4.23.46 0.913
4exg 916Beta-secretase 1 3.4.23.46 0.901
3nsh 957Beta-secretase 1 3.4.23.46 0.900
4i0i 957Beta-secretase 1 3.4.23.46 0.900
4dpf 0LGBeta-secretase 1 3.4.23.46 0.899
4dus 0MPBeta-secretase 1 3.4.23.46 0.898
3veu 0GOBeta-secretase 1 3.4.23.46 0.882
4gid 0GHBeta-secretase 1 3.4.23.46 0.880
2vkm BSDBeta-secretase 1 3.4.23.46 0.879
3ixj 586Beta-secretase 1 3.4.23.46 0.874
3k5g BJCBeta-secretase 1 3.4.23.46 0.871
3ohf 3HFBeta-secretase 1 3.4.23.46 0.870
2p83 MR0Beta-secretase 1 3.4.23.46 0.867
3i25 MV7Beta-secretase 1 3.4.23.46 0.867
4k8s 1QTBeta-secretase 1 3.4.23.46 0.867
2qzl IXSBeta-secretase 1 3.4.23.46 0.865
3cib 314Beta-secretase 1 3.4.23.46 0.865
4dpi 0N1Beta-secretase 1 3.4.23.46 0.858
3k5c 0BIBeta-secretase 1 3.4.23.46 0.855
3cid 318Beta-secretase 1 3.4.23.46 0.853
3qi1 C6ABeta-secretase 1 3.4.23.46 0.853
4ke0 1R8Beta-secretase 1 3.4.23.46 0.852
3cic 316Beta-secretase 1 3.4.23.46 0.845
3dm6 757Beta-secretase 1 3.4.23.46 0.844
3ohh 3HHBeta-secretase 1 3.4.23.46 0.838
3dv5 BAVBeta-secretase 1 3.4.23.46 0.806
3lpj Z75Beta-secretase 1 3.4.23.46 0.801
1w51 L01Beta-secretase 1 3.4.23.46 0.797
3pww ROCEndothiapepsin 3.4.23.22 0.795
4lxa 1YSBeta-secretase 1 3.4.23.46 0.792
3qbh QBHBeta-secretase 1 3.4.23.46 0.787
3pi5 3P5Beta-secretase 1 3.4.23.46 0.784
3r2f PB0Beta-secretase 1 3.4.23.46 0.784
2oah QINBeta-secretase 1 3.4.23.46 0.782
2hiz LIJBeta-secretase 1 3.4.23.46 0.780
4lxk 1YTBeta-secretase 1 3.4.23.46 0.780
3ixk 929Beta-secretase 1 3.4.23.46 0.778
3lpk Z76Beta-secretase 1 3.4.23.46 0.776
3dv1 AR9Beta-secretase 1 3.4.23.46 0.775
3n4l 842Beta-secretase 1 3.4.23.46 0.751
4i0h 1BLBeta-secretase 1 3.4.23.46 0.726
1gvv 0GMEndothiapepsin 3.4.23.22 0.723
3vg1 0GTBeta-secretase 1 3.4.23.46 0.718
4ke1 1R6Beta-secretase 1 3.4.23.46 0.709
2f3f AXFBeta-secretase 1 3.4.23.46 0.707
2hm1 LIQBeta-secretase 1 3.4.23.46 0.704
2jji 0QSEndothiapepsin 3.4.23.22 0.699
3duy AFJBeta-secretase 1 3.4.23.46 0.698
3k5d XLIBeta-secretase 1 3.4.23.46 0.698
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.697
2ntr L00Beta-secretase 1 3.4.23.46 0.694
1e80 0GQEndothiapepsin 3.4.23.22 0.690
2g94 ZPQBeta-secretase 1 3.4.23.46 0.681
3lpi Z74Beta-secretase 1 3.4.23.46 0.678
1iiq 0ZRGag-Pol polyprotein 3.4.23.16 0.674
2p4j 23IBeta-secretase 1 3.4.23.46 0.672
3own 3OXRenin 3.4.23.15 0.670
1b6k PI5Gag-Pol polyprotein 3.4.23.16 0.667
2f3e AXQBeta-secretase 1 3.4.23.46 0.667
3vf3 0GSBeta-secretase 1 3.4.23.46 0.664
4lxm 1YUBeta-secretase 1 3.4.23.46 0.664
2fdp FRPBeta-secretase 1 3.4.23.46 0.663
4d89 BXDBeta-secretase 1 3.4.23.46 0.660
1b6m PI6Gag-Pol polyprotein 3.4.23.16 0.657
1zsf 0ZSGag-Pol polyprotein 3.4.23.16 0.656
4j55 031Gag-Pol polyprotein 3.4.23.16 0.655
1eag A70Candidapepsin-2 3.4.23.24 0.654
1odx 0E8Gag-Pol polyprotein 3.4.23.16 0.654