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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
2viy VG3 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2viy VG3Beta-secretase 1 3.4.23.46 1.312
2viz VG4Beta-secretase 1 3.4.23.46 1.239
2vj6 VG5Beta-secretase 1 3.4.23.46 1.209
2xfj VG5Beta-secretase 1 3.4.23.46 1.208
2xfk AA9Beta-secretase 1 3.4.23.46 1.201
2xfi XFIBeta-secretase 1 3.4.23.46 1.182
2vnm CM8Beta-secretase 1 3.4.23.46 1.059
2vj7 VG6Beta-secretase 1 3.4.23.46 1.041
2vnn CM7Beta-secretase 1 3.4.23.46 1.031
2vij C44Beta-secretase 1 3.4.23.46 1.029
2wf0 ZY0Beta-secretase 1 3.4.23.46 1.028
2vie VG0Beta-secretase 1 3.4.23.46 1.023
2wez ZYEBeta-secretase 1 3.4.23.46 1.022
2wf3 ZY3Beta-secretase 1 3.4.23.46 1.005
2vj9 VG7Beta-secretase 1 3.4.23.46 0.997
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.987
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.985
2b8l 5HABeta-secretase 1 3.4.23.46 0.971
4fco 0U4Beta-secretase 1 3.4.23.46 0.968
2p8h MY9Beta-secretase 1 3.4.23.46 0.961
2wf4 ZY4Beta-secretase 1 3.4.23.46 0.945
2b8v 3BNBeta-secretase 1 3.4.23.46 0.927
3veu 0GOBeta-secretase 1 3.4.23.46 0.906
2iqg F2IBeta-secretase 1 3.4.23.46 0.897
4k9h 1QUBeta-secretase 1 3.4.23.46 0.896
4ewo 996Beta-secretase 1 3.4.23.46 0.886
4dus 0MPBeta-secretase 1 3.4.23.46 0.879
4exg 916Beta-secretase 1 3.4.23.46 0.873
2qzl IXSBeta-secretase 1 3.4.23.46 0.871
3k5c 0BIBeta-secretase 1 3.4.23.46 0.862
1w51 L01Beta-secretase 1 3.4.23.46 0.860
3nsh 957Beta-secretase 1 3.4.23.46 0.859
4i0i 957Beta-secretase 1 3.4.23.46 0.859
3dm6 757Beta-secretase 1 3.4.23.46 0.854
3k5g BJCBeta-secretase 1 3.4.23.46 0.852
2vkm BSDBeta-secretase 1 3.4.23.46 0.846
3ohf 3HFBeta-secretase 1 3.4.23.46 0.843
3i25 MV7Beta-secretase 1 3.4.23.46 0.842
3qi1 C6ABeta-secretase 1 3.4.23.46 0.839
3lpj Z75Beta-secretase 1 3.4.23.46 0.835
4dpi 0N1Beta-secretase 1 3.4.23.46 0.834
2p83 MR0Beta-secretase 1 3.4.23.46 0.828
3cid 318Beta-secretase 1 3.4.23.46 0.826
3cib 314Beta-secretase 1 3.4.23.46 0.823
3ixj 586Beta-secretase 1 3.4.23.46 0.823
4k8s 1QTBeta-secretase 1 3.4.23.46 0.822
3cic 316Beta-secretase 1 3.4.23.46 0.811
3dv5 BAVBeta-secretase 1 3.4.23.46 0.809
3ohh 3HHBeta-secretase 1 3.4.23.46 0.808
4ke0 1R8Beta-secretase 1 3.4.23.46 0.800
4ke1 1R6Beta-secretase 1 3.4.23.46 0.796
3pi5 3P5Beta-secretase 1 3.4.23.46 0.792
3pww ROCEndothiapepsin 3.4.23.22 0.792
4dh6 0KNBeta-secretase 1 3.4.23.46 0.781
3ixk 929Beta-secretase 1 3.4.23.46 0.779
4lxa 1YSBeta-secretase 1 3.4.23.46 0.775
3lpk Z76Beta-secretase 1 3.4.23.46 0.774
4i0h 1BLBeta-secretase 1 3.4.23.46 0.774
2fdp FRPBeta-secretase 1 3.4.23.46 0.773
2hiz LIJBeta-secretase 1 3.4.23.46 0.767
4lxk 1YTBeta-secretase 1 3.4.23.46 0.766
3k5f AYHBeta-secretase 1 3.4.23.46 0.765
2f3f AXFBeta-secretase 1 3.4.23.46 0.757
3r2f PB0Beta-secretase 1 3.4.23.46 0.752
3n4l 842Beta-secretase 1 3.4.23.46 0.750
3qbh QBHBeta-secretase 1 3.4.23.46 0.750
3vf3 0GSBeta-secretase 1 3.4.23.46 0.743
4gid 0GHBeta-secretase 1 3.4.23.46 0.738
2oah QINBeta-secretase 1 3.4.23.46 0.730
4d89 BXDBeta-secretase 1 3.4.23.46 0.729
2p4j 23IBeta-secretase 1 3.4.23.46 0.714
1gvw 0EMEndothiapepsin 3.4.23.22 0.713
3duy AFJBeta-secretase 1 3.4.23.46 0.710
4i0j 842Beta-secretase 1 3.4.23.46 0.705
4dpf 0LGBeta-secretase 1 3.4.23.46 0.702
1gvv 0GMEndothiapepsin 3.4.23.22 0.701
1e80 0GQEndothiapepsin 3.4.23.22 0.694
2g94 ZPQBeta-secretase 1 3.4.23.46 0.692
3vg1 0GTBeta-secretase 1 3.4.23.46 0.686
3own 3OWRenin 3.4.23.15 0.681
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.679
2hm1 LIQBeta-secretase 1 3.4.23.46 0.676
3lpi Z74Beta-secretase 1 3.4.23.46 0.674
1xe6 5FPPlasmepsin-2 3.4.23.39 0.671
3k5d XLIBeta-secretase 1 3.4.23.46 0.669
4lxm 1YUBeta-secretase 1 3.4.23.46 0.662
2f3e AXQBeta-secretase 1 3.4.23.46 0.652