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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
3ohf 3HF Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3ohf 3HFBeta-secretase 1 3.4.23.46 1.230
3ohh 3HHBeta-secretase 1 3.4.23.46 1.014
2viz VG4Beta-secretase 1 3.4.23.46 0.921
2vnm CM8Beta-secretase 1 3.4.23.46 0.893
3k5g BJCBeta-secretase 1 3.4.23.46 0.892
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.891
2iqg F2IBeta-secretase 1 3.4.23.46 0.887
2xfi XFIBeta-secretase 1 3.4.23.46 0.879
2xfk AA9Beta-secretase 1 3.4.23.46 0.879
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.878
2vj6 VG5Beta-secretase 1 3.4.23.46 0.874
2vnn CM7Beta-secretase 1 3.4.23.46 0.874
2xfj VG5Beta-secretase 1 3.4.23.46 0.870
4dpi 0N1Beta-secretase 1 3.4.23.46 0.867
3veu 0GOBeta-secretase 1 3.4.23.46 0.864
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.859
2wez ZYEBeta-secretase 1 3.4.23.46 0.852
2vie VG0Beta-secretase 1 3.4.23.46 0.850
3cib 314Beta-secretase 1 3.4.23.46 0.850
3lpi Z74Beta-secretase 1 3.4.23.46 0.850
2vkm BSDBeta-secretase 1 3.4.23.46 0.848
4fco 0U4Beta-secretase 1 3.4.23.46 0.846
1w51 L01Beta-secretase 1 3.4.23.46 0.843
2viy VG3Beta-secretase 1 3.4.23.46 0.843
3lpj Z75Beta-secretase 1 3.4.23.46 0.841
4k9h 1QUBeta-secretase 1 3.4.23.46 0.839
2b8v 3BNBeta-secretase 1 3.4.23.46 0.838
2p8h MY9Beta-secretase 1 3.4.23.46 0.832
2wf4 ZY4Beta-secretase 1 3.4.23.46 0.828
4dpf 0LGBeta-secretase 1 3.4.23.46 0.824
2p83 MR0Beta-secretase 1 3.4.23.46 0.821
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.817
3cid 318Beta-secretase 1 3.4.23.46 0.811
3r2f PB0Beta-secretase 1 3.4.23.46 0.811
3cic 316Beta-secretase 1 3.4.23.46 0.806
2hm1 LIQBeta-secretase 1 3.4.23.46 0.804
2vj7 VG6Beta-secretase 1 3.4.23.46 0.799
2vij C44Beta-secretase 1 3.4.23.46 0.798
3vf3 0GSBeta-secretase 1 3.4.23.46 0.792
4lxa 1YSBeta-secretase 1 3.4.23.46 0.791
3k5c 0BIBeta-secretase 1 3.4.23.46 0.789
4lxk 1YTBeta-secretase 1 3.4.23.46 0.786
2vj9 VG7Beta-secretase 1 3.4.23.46 0.779
2b8l 5HABeta-secretase 1 3.4.23.46 0.775
3lpk Z76Beta-secretase 1 3.4.23.46 0.765
3dm6 757Beta-secretase 1 3.4.23.46 0.764
4k8s 1QTBeta-secretase 1 3.4.23.46 0.764
3dv5 BAVBeta-secretase 1 3.4.23.46 0.763
4d89 BXDBeta-secretase 1 3.4.23.46 0.758
2hiz LIJBeta-secretase 1 3.4.23.46 0.756
4lxm 1YUBeta-secretase 1 3.4.23.46 0.750
3skg PB8Beta-secretase 1 3.4.23.46 0.748
3pi5 3P5Beta-secretase 1 3.4.23.46 0.744
3vg1 0GTBeta-secretase 1 3.4.23.46 0.744
4gid 0GHBeta-secretase 1 3.4.23.46 0.744
2qzl IXSBeta-secretase 1 3.4.23.46 0.743
2fdp FRPBeta-secretase 1 3.4.23.46 0.738
3qbh QBHBeta-secretase 1 3.4.23.46 0.736
3tpr 5HABeta-secretase 1 3.4.23.46 0.728
4dus 0MPBeta-secretase 1 3.4.23.46 0.728
3k5f AYHBeta-secretase 1 3.4.23.46 0.704
3i25 MV7Beta-secretase 1 3.4.23.46 0.700
3pww ROCEndothiapepsin 3.4.23.22 0.696
2jji 0QSEndothiapepsin 3.4.23.22 0.686
2ntr L00Beta-secretase 1 3.4.23.46 0.679
1e80 0GQEndothiapepsin 3.4.23.22 0.669
1od1 0QSEndothiapepsin 3.4.23.22 0.668
2p4j 23IBeta-secretase 1 3.4.23.46 0.668
1gvt 2ZSEndothiapepsin 3.4.23.22 0.666
1bxq PP8Penicillopepsin-1 3.4.23.20 0.662
3ixj 586Beta-secretase 1 3.4.23.46 0.662
3duy AFJBeta-secretase 1 3.4.23.46 0.660
3k5d XLIBeta-secretase 1 3.4.23.46 0.659
3dv1 AR9Beta-secretase 1 3.4.23.46 0.656
2f3e AXQBeta-secretase 1 3.4.23.46 0.652