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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
2wf1 ZY1 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2wf1 ZY1Beta-secretase 1 3.4.23.46 1.214
2wf2 ZY2Beta-secretase 1 3.4.23.46 1.116
2vnn CM7Beta-secretase 1 3.4.23.46 1.113
2wez ZYEBeta-secretase 1 3.4.23.46 1.108
2wf3 ZY3Beta-secretase 1 3.4.23.46 1.098
2vj7 VG6Beta-secretase 1 3.4.23.46 1.077
2vj6 VG5Beta-secretase 1 3.4.23.46 1.073
2wf0 ZY0Beta-secretase 1 3.4.23.46 1.073
2vnm CM8Beta-secretase 1 3.4.23.46 1.064
2xfj VG5Beta-secretase 1 3.4.23.46 1.061
2viz VG4Beta-secretase 1 3.4.23.46 1.058
2wf4 ZY4Beta-secretase 1 3.4.23.46 1.043
2vie VG0Beta-secretase 1 3.4.23.46 1.035
2vij C44Beta-secretase 1 3.4.23.46 1.028
2xfk AA9Beta-secretase 1 3.4.23.46 1.023
2vj9 VG7Beta-secretase 1 3.4.23.46 1.007
4fco 0U4Beta-secretase 1 3.4.23.46 1.003
2xfi XFIBeta-secretase 1 3.4.23.46 0.992
2viy VG3Beta-secretase 1 3.4.23.46 0.987
2b8l 5HABeta-secretase 1 3.4.23.46 0.980
2p8h MY9Beta-secretase 1 3.4.23.46 0.967
2b8v 3BNBeta-secretase 1 3.4.23.46 0.966
3k5g BJCBeta-secretase 1 3.4.23.46 0.920
4dpf 0LGBeta-secretase 1 3.4.23.46 0.908
4k9h 1QUBeta-secretase 1 3.4.23.46 0.898
4exg 916Beta-secretase 1 3.4.23.46 0.894
4dpi 0N1Beta-secretase 1 3.4.23.46 0.883
3veu 0GOBeta-secretase 1 3.4.23.46 0.879
3ohf 3HFBeta-secretase 1 3.4.23.46 0.878
2qzl IXSBeta-secretase 1 3.4.23.46 0.873
3qi1 C6ABeta-secretase 1 3.4.23.46 0.856
3k5c 0BIBeta-secretase 1 3.4.23.46 0.855
4gid 0GHBeta-secretase 1 3.4.23.46 0.854
2vkm BSDBeta-secretase 1 3.4.23.46 0.851
4dus 0MPBeta-secretase 1 3.4.23.46 0.844
3i25 MV7Beta-secretase 1 3.4.23.46 0.843
3lpj Z75Beta-secretase 1 3.4.23.46 0.842
4ke0 1R8Beta-secretase 1 3.4.23.46 0.842
3r2f PB0Beta-secretase 1 3.4.23.46 0.831
3ixj 586Beta-secretase 1 3.4.23.46 0.827
3ohh 3HHBeta-secretase 1 3.4.23.46 0.826
4k8s 1QTBeta-secretase 1 3.4.23.46 0.823
3dm6 757Beta-secretase 1 3.4.23.46 0.821
3dv5 BAVBeta-secretase 1 3.4.23.46 0.816
4ke1 1R6Beta-secretase 1 3.4.23.46 0.812
1w51 L01Beta-secretase 1 3.4.23.46 0.802
3k5f AYHBeta-secretase 1 3.4.23.46 0.796
2hiz LIJBeta-secretase 1 3.4.23.46 0.776
3pww ROCEndothiapepsin 3.4.23.22 0.775
2hm1 LIQBeta-secretase 1 3.4.23.46 0.769
3qbh QBHBeta-secretase 1 3.4.23.46 0.768
3pi5 3P5Beta-secretase 1 3.4.23.46 0.765
3cic 316Beta-secretase 1 3.4.23.46 0.764
3lpk Z76Beta-secretase 1 3.4.23.46 0.760
4i0h 1BLBeta-secretase 1 3.4.23.46 0.760
3ixk 929Beta-secretase 1 3.4.23.46 0.755
4lxa 1YSBeta-secretase 1 3.4.23.46 0.755
2iqg F2IBeta-secretase 1 3.4.23.46 0.754
3n4l 842Beta-secretase 1 3.4.23.46 0.753
3cid 318Beta-secretase 1 3.4.23.46 0.751
4lxk 1YTBeta-secretase 1 3.4.23.46 0.751
3cib 314Beta-secretase 1 3.4.23.46 0.735
3dv1 AR9Beta-secretase 1 3.4.23.46 0.726
3lpi Z74Beta-secretase 1 3.4.23.46 0.726
3vf3 0GSBeta-secretase 1 3.4.23.46 0.726
2p4j 23IBeta-secretase 1 3.4.23.46 0.724
2oah QINBeta-secretase 1 3.4.23.46 0.722
2g94 ZPQBeta-secretase 1 3.4.23.46 0.710
2f3e AXQBeta-secretase 1 3.4.23.46 0.706
2fdp FRPBeta-secretase 1 3.4.23.46 0.706
2jjj 0QSEndothiapepsin 3.4.23.22 0.699
3k5d XLIBeta-secretase 1 3.4.23.46 0.689
2jji 0QSEndothiapepsin 3.4.23.22 0.687
1w6h TITPlasmepsin-2 3.4.23.39 0.685
3duy AFJBeta-secretase 1 3.4.23.46 0.683
3vg1 0GTBeta-secretase 1 3.4.23.46 0.677
1e80 0GQEndothiapepsin 3.4.23.22 0.676
2f3f AXFBeta-secretase 1 3.4.23.46 0.668
2ntr L00Beta-secretase 1 3.4.23.46 0.667
4d89 BXDBeta-secretase 1 3.4.23.46 0.666
4y38 0A9Endothiapepsin 3.4.23.22 0.665
4ewo 996Beta-secretase 1 3.4.23.46 0.661
1eag A70Candidapepsin-2 3.4.23.24 0.658
2p83 MR0Beta-secretase 1 3.4.23.46 0.654