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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
4dpf 0LG Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4dpf 0LGBeta-secretase 1 3.4.23.46 1.370
2vnm CM8Beta-secretase 1 3.4.23.46 1.002
2vnn CM7Beta-secretase 1 3.4.23.46 0.999
2vj7 VG6Beta-secretase 1 3.4.23.46 0.990
4dpi 0N1Beta-secretase 1 3.4.23.46 0.989
2b8l 5HABeta-secretase 1 3.4.23.46 0.971
4fco 0U4Beta-secretase 1 3.4.23.46 0.969
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.962
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.961
2viz VG4Beta-secretase 1 3.4.23.46 0.941
2b8v 3BNBeta-secretase 1 3.4.23.46 0.937
2vkm BSDBeta-secretase 1 3.4.23.46 0.928
2p8h MY9Beta-secretase 1 3.4.23.46 0.922
2vj6 VG5Beta-secretase 1 3.4.23.46 0.922
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.922
3k5g BJCBeta-secretase 1 3.4.23.46 0.913
2xfi XFIBeta-secretase 1 3.4.23.46 0.910
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.908
2wez ZYEBeta-secretase 1 3.4.23.46 0.906
2vie VG0Beta-secretase 1 3.4.23.46 0.905
2vij C44Beta-secretase 1 3.4.23.46 0.901
3dm6 757Beta-secretase 1 3.4.23.46 0.900
2xfj VG5Beta-secretase 1 3.4.23.46 0.899
3dv5 BAVBeta-secretase 1 3.4.23.46 0.897
3lpj Z75Beta-secretase 1 3.4.23.46 0.894
2iqg F2IBeta-secretase 1 3.4.23.46 0.888
4gid 0GHBeta-secretase 1 3.4.23.46 0.888
2vj9 VG7Beta-secretase 1 3.4.23.46 0.887
3k5c 0BIBeta-secretase 1 3.4.23.46 0.881
2xfk AA9Beta-secretase 1 3.4.23.46 0.876
2wf4 ZY4Beta-secretase 1 3.4.23.46 0.875
3cib 314Beta-secretase 1 3.4.23.46 0.869
4k9h 1QUBeta-secretase 1 3.4.23.46 0.860
3cid 318Beta-secretase 1 3.4.23.46 0.845
3lpi Z74Beta-secretase 1 3.4.23.46 0.842
2p83 MR0Beta-secretase 1 3.4.23.46 0.825
3cic 316Beta-secretase 1 3.4.23.46 0.825
3ohf 3HFBeta-secretase 1 3.4.23.46 0.824
3lpk Z76Beta-secretase 1 3.4.23.46 0.822
3ixj 586Beta-secretase 1 3.4.23.46 0.821
3i25 MV7Beta-secretase 1 3.4.23.46 0.819
2qzl IXSBeta-secretase 1 3.4.23.46 0.814
2oah QINBeta-secretase 1 3.4.23.46 0.804
2p4j 23IBeta-secretase 1 3.4.23.46 0.804
4dus 0MPBeta-secretase 1 3.4.23.46 0.803
4k8s 1QTBeta-secretase 1 3.4.23.46 0.785
1w51 L01Beta-secretase 1 3.4.23.46 0.784
3qbh QBHBeta-secretase 1 3.4.23.46 0.780
3tpr 5HABeta-secretase 1 3.4.23.46 0.780
3r2f PB0Beta-secretase 1 3.4.23.46 0.775
3ixk 929Beta-secretase 1 3.4.23.46 0.773
4ke1 1R6Beta-secretase 1 3.4.23.46 0.773
2hiz LIJBeta-secretase 1 3.4.23.46 0.756
3k5f AYHBeta-secretase 1 3.4.23.46 0.751
2fdp FRPBeta-secretase 1 3.4.23.46 0.750
3pi5 3P5Beta-secretase 1 3.4.23.46 0.748
2hm1 LIQBeta-secretase 1 3.4.23.46 0.743
4dh6 0KNBeta-secretase 1 3.4.23.46 0.740
2f3f AXFBeta-secretase 1 3.4.23.46 0.736
3own 3OXRenin 3.4.23.15 0.730
3vg1 0GTBeta-secretase 1 3.4.23.46 0.724
3ohh 3HHBeta-secretase 1 3.4.23.46 0.723
3n4l 842Beta-secretase 1 3.4.23.46 0.715
2f3e AXQBeta-secretase 1 3.4.23.46 0.711
4i0j 842Beta-secretase 1 3.4.23.46 0.711
3dv1 AR9Beta-secretase 1 3.4.23.46 0.710
2viy VG3Beta-secretase 1 3.4.23.46 0.702
3duy AFJBeta-secretase 1 3.4.23.46 0.701
2g94 ZPQBeta-secretase 1 3.4.23.46 0.695
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.686
3k5d XLIBeta-secretase 1 3.4.23.46 0.678
3dcr KVSProtease / 0.668
2jjj 0QSEndothiapepsin 3.4.23.22 0.667
3vf3 0GSBeta-secretase 1 3.4.23.46 0.666
3veu 0GOBeta-secretase 1 3.4.23.46 0.665
1b6m PI6Gag-Pol polyprotein 3.4.23.16 0.660
4exg 916Beta-secretase 1 3.4.23.46 0.659
1zsf 0ZSGag-Pol polyprotein 3.4.23.16 0.657
1gvv 0GMEndothiapepsin 3.4.23.22 0.655