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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
4exg 916 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4exg 916Beta-secretase 1 3.4.23.46 1.239
4ewo 996Beta-secretase 1 3.4.23.46 1.194
3qi1 C6ABeta-secretase 1 3.4.23.46 1.032
4dus 0MPBeta-secretase 1 3.4.23.46 1.019
3nsh 957Beta-secretase 1 3.4.23.46 0.992
4i0i 957Beta-secretase 1 3.4.23.46 0.992
3k5c 0BIBeta-secretase 1 3.4.23.46 0.952
3veu 0GOBeta-secretase 1 3.4.23.46 0.946
4dh6 0KNBeta-secretase 1 3.4.23.46 0.943
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.933
2vnm CM8Beta-secretase 1 3.4.23.46 0.926
4ke0 1R8Beta-secretase 1 3.4.23.46 0.922
2vie VG0Beta-secretase 1 3.4.23.46 0.918
4ke1 1R6Beta-secretase 1 3.4.23.46 0.915
2xfi XFIBeta-secretase 1 3.4.23.46 0.911
2xfk AA9Beta-secretase 1 3.4.23.46 0.909
2vnn CM7Beta-secretase 1 3.4.23.46 0.906
4k8s 1QTBeta-secretase 1 3.4.23.46 0.905
2xfj VG5Beta-secretase 1 3.4.23.46 0.901
2vj7 VG6Beta-secretase 1 3.4.23.46 0.894
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.894
3cib 314Beta-secretase 1 3.4.23.46 0.894
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.887
2p8h MY9Beta-secretase 1 3.4.23.46 0.883
4i0h 1BLBeta-secretase 1 3.4.23.46 0.883
2vij C44Beta-secretase 1 3.4.23.46 0.875
2viy VG3Beta-secretase 1 3.4.23.46 0.873
4fco 0U4Beta-secretase 1 3.4.23.46 0.871
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.854
3ohh 3HHBeta-secretase 1 3.4.23.46 0.846
3cic 316Beta-secretase 1 3.4.23.46 0.845
2wez ZYEBeta-secretase 1 3.4.23.46 0.843
4lxk 1YTBeta-secretase 1 3.4.23.46 0.835
4lxa 1YSBeta-secretase 1 3.4.23.46 0.829
2viz VG4Beta-secretase 1 3.4.23.46 0.822
3dv5 BAVBeta-secretase 1 3.4.23.46 0.820
3r2f PB0Beta-secretase 1 3.4.23.46 0.818
3cid 318Beta-secretase 1 3.4.23.46 0.817
4lxm 1YUBeta-secretase 1 3.4.23.46 0.817
2b8v 3BNBeta-secretase 1 3.4.23.46 0.816
2vj6 VG5Beta-secretase 1 3.4.23.46 0.807
2hm1 LIQBeta-secretase 1 3.4.23.46 0.806
2b8l 5HABeta-secretase 1 3.4.23.46 0.801
3pi5 3P5Beta-secretase 1 3.4.23.46 0.801
3n4l 842Beta-secretase 1 3.4.23.46 0.789
4i0j 842Beta-secretase 1 3.4.23.46 0.788
3vf3 0GSBeta-secretase 1 3.4.23.46 0.787
3qbh QBHBeta-secretase 1 3.4.23.46 0.785
2vkm BSDBeta-secretase 1 3.4.23.46 0.779
3lpk Z76Beta-secretase 1 3.4.23.46 0.768
3pww ROCEndothiapepsin 3.4.23.22 0.765
3lpi Z74Beta-secretase 1 3.4.23.46 0.764
2hiz LIJBeta-secretase 1 3.4.23.46 0.743
4d89 BXDBeta-secretase 1 3.4.23.46 0.731
4k9h 1QUBeta-secretase 1 3.4.23.46 0.729
1e80 0GQEndothiapepsin 3.4.23.22 0.726
2f3f AXFBeta-secretase 1 3.4.23.46 0.714
3vg1 0GTBeta-secretase 1 3.4.23.46 0.708
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.697
3tpr 5HABeta-secretase 1 3.4.23.46 0.694
3ixk 929Beta-secretase 1 3.4.23.46 0.688
2g94 ZPQBeta-secretase 1 3.4.23.46 0.681
1b6m PI6Gag-Pol polyprotein 3.4.23.16 0.677
1bil 0IURenin 3.4.23.15 0.677
1w51 L01Beta-secretase 1 3.4.23.46 0.666
1od1 0QSEndothiapepsin 3.4.23.22 0.663
4e5f 0N7Polymerase acidic protein / 0.663
1gvw 0EMEndothiapepsin 3.4.23.22 0.661
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.660
4e5i 0N9Polymerase acidic protein / 0.660
4dpf 0LGBeta-secretase 1 3.4.23.46 0.659
3i25 MV7Beta-secretase 1 3.4.23.46 0.655
2vj9 VG7Beta-secretase 1 3.4.23.46 0.654
3lpj Z75Beta-secretase 1 3.4.23.46 0.652