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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
4ewo 996 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4ewo 996Beta-secretase 1 3.4.23.46 1.224
4exg 916Beta-secretase 1 3.4.23.46 1.194
3nsh 957Beta-secretase 1 3.4.23.46 1.022
4i0i 957Beta-secretase 1 3.4.23.46 1.022
4dus 0MPBeta-secretase 1 3.4.23.46 0.988
3qi1 C6ABeta-secretase 1 3.4.23.46 0.981
2vj6 VG5Beta-secretase 1 3.4.23.46 0.958
2xfj VG5Beta-secretase 1 3.4.23.46 0.956
3k5c 0BIBeta-secretase 1 3.4.23.46 0.942
2viz VG4Beta-secretase 1 3.4.23.46 0.938
2vnm CM8Beta-secretase 1 3.4.23.46 0.931
2xfi XFIBeta-secretase 1 3.4.23.46 0.923
3veu 0GOBeta-secretase 1 3.4.23.46 0.919
4dh6 0KNBeta-secretase 1 3.4.23.46 0.913
2vnn CM7Beta-secretase 1 3.4.23.46 0.910
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.907
2vie VG0Beta-secretase 1 3.4.23.46 0.905
2xfk AA9Beta-secretase 1 3.4.23.46 0.902
4ke1 1R6Beta-secretase 1 3.4.23.46 0.896
2vij C44Beta-secretase 1 3.4.23.46 0.891
4k8s 1QTBeta-secretase 1 3.4.23.46 0.889
4ke0 1R8Beta-secretase 1 3.4.23.46 0.887
2viy VG3Beta-secretase 1 3.4.23.46 0.886
4i0h 1BLBeta-secretase 1 3.4.23.46 0.886
4fco 0U4Beta-secretase 1 3.4.23.46 0.878
2vj9 VG7Beta-secretase 1 3.4.23.46 0.877
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.872
2vj7 VG6Beta-secretase 1 3.4.23.46 0.871
2wez ZYEBeta-secretase 1 3.4.23.46 0.871
2b8l 5HABeta-secretase 1 3.4.23.46 0.870
2p8h MY9Beta-secretase 1 3.4.23.46 0.863
2b8v 3BNBeta-secretase 1 3.4.23.46 0.839
2hiz LIJBeta-secretase 1 3.4.23.46 0.830
4lxm 1YUBeta-secretase 1 3.4.23.46 0.821
4lxk 1YTBeta-secretase 1 3.4.23.46 0.820
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.808
4i0j 842Beta-secretase 1 3.4.23.46 0.806
4lxa 1YSBeta-secretase 1 3.4.23.46 0.801
3dv5 BAVBeta-secretase 1 3.4.23.46 0.800
3vf3 0GSBeta-secretase 1 3.4.23.46 0.796
3qbh QBHBeta-secretase 1 3.4.23.46 0.791
3pww ROCEndothiapepsin 3.4.23.22 0.787
2p83 MR0Beta-secretase 1 3.4.23.46 0.781
3lpi Z74Beta-secretase 1 3.4.23.46 0.776
3r2f PB0Beta-secretase 1 3.4.23.46 0.773
3pi5 3P5Beta-secretase 1 3.4.23.46 0.770
3n4l 842Beta-secretase 1 3.4.23.46 0.769
3lpk Z76Beta-secretase 1 3.4.23.46 0.764
3cid 318Beta-secretase 1 3.4.23.46 0.741
1e80 0GQEndothiapepsin 3.4.23.22 0.722
4d89 BXDBeta-secretase 1 3.4.23.46 0.718
2hm1 LIQBeta-secretase 1 3.4.23.46 0.717
2qzl IXSBeta-secretase 1 3.4.23.46 0.713
4k9h 1QUBeta-secretase 1 3.4.23.46 0.713
3tpr 5HABeta-secretase 1 3.4.23.46 0.706
1b6k PI5Gag-Pol polyprotein 3.4.23.16 0.704
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.686
3k5f AYHBeta-secretase 1 3.4.23.46 0.684
3vg1 0GTBeta-secretase 1 3.4.23.46 0.684
1b6m PI6Gag-Pol polyprotein 3.4.23.16 0.676
2iqg F2IBeta-secretase 1 3.4.23.46 0.669
1od1 0QSEndothiapepsin 3.4.23.22 0.662
1ppm 0P1Penicillopepsin-1 3.4.23.20 0.661
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.661
4e5f 0N7Polymerase acidic protein / 0.661
3i25 MV7Beta-secretase 1 3.4.23.46 0.656
2vkm BSDBeta-secretase 1 3.4.23.46 0.655
1iiq 0ZRGag-Pol polyprotein 3.4.23.16 0.653
3cib 314Beta-secretase 1 3.4.23.46 0.651