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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
3cic 316 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3cic 316Beta-secretase 1 3.4.23.46 1.362
3cid 318Beta-secretase 1 3.4.23.46 1.275
3cib 314Beta-secretase 1 3.4.23.46 1.246
3lpi Z74Beta-secretase 1 3.4.23.46 1.155
2iqg F2IBeta-secretase 1 3.4.23.46 1.137
3lpj Z75Beta-secretase 1 3.4.23.46 1.104
3lpk Z76Beta-secretase 1 3.4.23.46 1.095
3k5c 0BIBeta-secretase 1 3.4.23.46 0.949
2p83 MR0Beta-secretase 1 3.4.23.46 0.942
2p8h MY9Beta-secretase 1 3.4.23.46 0.915
3nsh 957Beta-secretase 1 3.4.23.46 0.881
4i0i 957Beta-secretase 1 3.4.23.46 0.881
2viz VG4Beta-secretase 1 3.4.23.46 0.875
4fco 0U4Beta-secretase 1 3.4.23.46 0.869
3qi1 C6ABeta-secretase 1 3.4.23.46 0.868
3ohh 3HHBeta-secretase 1 3.4.23.46 0.864
4k8s 1QTBeta-secretase 1 3.4.23.46 0.863
2b8v 3BNBeta-secretase 1 3.4.23.46 0.862
3veu 0GOBeta-secretase 1 3.4.23.46 0.862
4dpi 0N1Beta-secretase 1 3.4.23.46 0.861
2b8l 5HABeta-secretase 1 3.4.23.46 0.860
2vj6 VG5Beta-secretase 1 3.4.23.46 0.860
2vj9 VG7Beta-secretase 1 3.4.23.46 0.860
2xfi XFIBeta-secretase 1 3.4.23.46 0.848
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.846
3qbh QBHBeta-secretase 1 3.4.23.46 0.846
2vj7 VG6Beta-secretase 1 3.4.23.46 0.845
2xfj VG5Beta-secretase 1 3.4.23.46 0.845
4exg 916Beta-secretase 1 3.4.23.46 0.845
3k5g BJCBeta-secretase 1 3.4.23.46 0.840
2xfk AA9Beta-secretase 1 3.4.23.46 0.831
4ke0 1R8Beta-secretase 1 3.4.23.46 0.829
3r2f PB0Beta-secretase 1 3.4.23.46 0.827
2vij C44Beta-secretase 1 3.4.23.46 0.825
4dpf 0LGBeta-secretase 1 3.4.23.46 0.825
3dv5 BAVBeta-secretase 1 3.4.23.46 0.820
3i25 MV7Beta-secretase 1 3.4.23.46 0.814
2vie VG0Beta-secretase 1 3.4.23.46 0.812
2viy VG3Beta-secretase 1 3.4.23.46 0.811
2vnn CM7Beta-secretase 1 3.4.23.46 0.809
3ohf 3HFBeta-secretase 1 3.4.23.46 0.806
3vf3 0GSBeta-secretase 1 3.4.23.46 0.805
1w51 L01Beta-secretase 1 3.4.23.46 0.804
4k9h 1QUBeta-secretase 1 3.4.23.46 0.802
4i0h 1BLBeta-secretase 1 3.4.23.46 0.801
3ixj 586Beta-secretase 1 3.4.23.46 0.798
2wf4 ZY4Beta-secretase 1 3.4.23.46 0.793
2vnm CM8Beta-secretase 1 3.4.23.46 0.787
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.786
4dus 0MPBeta-secretase 1 3.4.23.46 0.786
2hiz LIJBeta-secretase 1 3.4.23.46 0.774
3n4l 842Beta-secretase 1 3.4.23.46 0.765
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.764
2wez ZYEBeta-secretase 1 3.4.23.46 0.759
4ke1 1R6Beta-secretase 1 3.4.23.46 0.755
3ixk 929Beta-secretase 1 3.4.23.46 0.743
4gid 0GHBeta-secretase 1 3.4.23.46 0.742
3pi5 3P5Beta-secretase 1 3.4.23.46 0.737
1xe6 5FPPlasmepsin-2 3.4.23.39 0.732
3tpr 5HABeta-secretase 1 3.4.23.46 0.730
2oah QINBeta-secretase 1 3.4.23.46 0.728
2f3e AXQBeta-secretase 1 3.4.23.46 0.723
3dv1 AR9Beta-secretase 1 3.4.23.46 0.715
2qzl IXSBeta-secretase 1 3.4.23.46 0.713
3k5d XLIBeta-secretase 1 3.4.23.46 0.704
3k5f AYHBeta-secretase 1 3.4.23.46 0.703
3pww ROCEndothiapepsin 3.4.23.22 0.701
2hm1 LIQBeta-secretase 1 3.4.23.46 0.700
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.700
2g94 ZPQBeta-secretase 1 3.4.23.46 0.699
2p4j 23IBeta-secretase 1 3.4.23.46 0.697
1w6h TITPlasmepsin-2 3.4.23.39 0.692
1psa 0ZLPepsin A 3.4.23.1 0.690
2vkm BSDBeta-secretase 1 3.4.23.46 0.690
4d89 BXDBeta-secretase 1 3.4.23.46 0.689
3dm6 757Beta-secretase 1 3.4.23.46 0.686
2g20 L1ARenin 3.4.23.15 0.684
2jji 0QSEndothiapepsin 3.4.23.22 0.683
2f3f AXFBeta-secretase 1 3.4.23.46 0.682
3skg PB8Beta-secretase 1 3.4.23.46 0.676
3tne RITCandidapepsin-1 3.4.23.24 0.668
3vg1 0GTBeta-secretase 1 3.4.23.46 0.658
4lxk 1YTBeta-secretase 1 3.4.23.46 0.658
4lxa 1YSBeta-secretase 1 3.4.23.46 0.657
4y38 0A9Endothiapepsin 3.4.23.22 0.657
1e82 M90Endothiapepsin 3.4.23.22 0.656
3duy AFJBeta-secretase 1 3.4.23.46 0.655
2fdp FRPBeta-secretase 1 3.4.23.46 0.654
3own 3OXRenin 3.4.23.15 0.654