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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
4dpi 0N1 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4dpi 0N1Beta-secretase 1 3.4.23.46 1.267
4dpf 0LGBeta-secretase 1 3.4.23.46 0.989
2b8l 5HABeta-secretase 1 3.4.23.46 0.963
2vnm CM8Beta-secretase 1 3.4.23.46 0.928
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.927
2vnn CM7Beta-secretase 1 3.4.23.46 0.924
3k5g BJCBeta-secretase 1 3.4.23.46 0.922
2vj7 VG6Beta-secretase 1 3.4.23.46 0.921
2iqg F2IBeta-secretase 1 3.4.23.46 0.918
2vkm BSDBeta-secretase 1 3.4.23.46 0.901
3dv5 BAVBeta-secretase 1 3.4.23.46 0.889
3cib 314Beta-secretase 1 3.4.23.46 0.888
2wez ZYEBeta-secretase 1 3.4.23.46 0.883
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.883
2xfk AA9Beta-secretase 1 3.4.23.46 0.883
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.879
2vie VG0Beta-secretase 1 3.4.23.46 0.876
2xfi XFIBeta-secretase 1 3.4.23.46 0.874
3dm6 757Beta-secretase 1 3.4.23.46 0.868
3ohf 3HFBeta-secretase 1 3.4.23.46 0.867
3lpj Z75Beta-secretase 1 3.4.23.46 0.866
3k5c 0BIBeta-secretase 1 3.4.23.46 0.862
3cic 316Beta-secretase 1 3.4.23.46 0.861
3lpi Z74Beta-secretase 1 3.4.23.46 0.861
4lxa 1YSBeta-secretase 1 3.4.23.46 0.860
2vj6 VG5Beta-secretase 1 3.4.23.46 0.858
2xfj VG5Beta-secretase 1 3.4.23.46 0.858
3cid 318Beta-secretase 1 3.4.23.46 0.849
2vj9 VG7Beta-secretase 1 3.4.23.46 0.838
4k9h 1QUBeta-secretase 1 3.4.23.46 0.838
1w51 L01Beta-secretase 1 3.4.23.46 0.836
4lxk 1YTBeta-secretase 1 3.4.23.46 0.835
2viy VG3Beta-secretase 1 3.4.23.46 0.834
2vij C44Beta-secretase 1 3.4.23.46 0.830
2hm1 LIQBeta-secretase 1 3.4.23.46 0.828
2qzl IXSBeta-secretase 1 3.4.23.46 0.807
3nsh 957Beta-secretase 1 3.4.23.46 0.803
4i0i 957Beta-secretase 1 3.4.23.46 0.803
2wf4 ZY4Beta-secretase 1 3.4.23.46 0.801
4lxm 1YUBeta-secretase 1 3.4.23.46 0.791
4k8s 1QTBeta-secretase 1 3.4.23.46 0.784
4dus 0MPBeta-secretase 1 3.4.23.46 0.782
3ohh 3HHBeta-secretase 1 3.4.23.46 0.779
3vg1 0GTBeta-secretase 1 3.4.23.46 0.774
3i25 MV7Beta-secretase 1 3.4.23.46 0.766
2hiz LIJBeta-secretase 1 3.4.23.46 0.762
3pi5 3P5Beta-secretase 1 3.4.23.46 0.762
3qbh QBHBeta-secretase 1 3.4.23.46 0.760
2p83 MR0Beta-secretase 1 3.4.23.46 0.756
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.752
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.744
4e5i 0N9Polymerase acidic protein / 0.744
3k5f AYHBeta-secretase 1 3.4.23.46 0.738
2fdp FRPBeta-secretase 1 3.4.23.46 0.734
3ixk 929Beta-secretase 1 3.4.23.46 0.732
2p4j 23IBeta-secretase 1 3.4.23.46 0.722
2f3f AXFBeta-secretase 1 3.4.23.46 0.721
3dv1 AR9Beta-secretase 1 3.4.23.46 0.717
3tpr 5HABeta-secretase 1 3.4.23.46 0.717
3n4l 842Beta-secretase 1 3.4.23.46 0.712
1gvv 0GMEndothiapepsin 3.4.23.22 0.709
2p8h MY9Beta-secretase 1 3.4.23.46 0.701
4fco 0U4Beta-secretase 1 3.4.23.46 0.701
2viz VG4Beta-secretase 1 3.4.23.46 0.699
2g94 ZPQBeta-secretase 1 3.4.23.46 0.698
4i0j 842Beta-secretase 1 3.4.23.46 0.695
2jjj 0QSEndothiapepsin 3.4.23.22 0.691
3veu 0GOBeta-secretase 1 3.4.23.46 0.685
4gid 0GHBeta-secretase 1 3.4.23.46 0.684
2f3e AXQBeta-secretase 1 3.4.23.46 0.682
2oah QINBeta-secretase 1 3.4.23.46 0.675
3skg PB8Beta-secretase 1 3.4.23.46 0.674
4ke1 1R6Beta-secretase 1 3.4.23.46 0.674
3k5d XLIBeta-secretase 1 3.4.23.46 0.673
1e80 0GQEndothiapepsin 3.4.23.22 0.667
3duy AFJBeta-secretase 1 3.4.23.46 0.663
2b8v 3BNBeta-secretase 1 3.4.23.46 0.662
2jji 0QSEndothiapepsin 3.4.23.22 0.658
3own 3OWRenin 3.4.23.15 0.657