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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
3ixk 929 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3ixk 929Beta-secretase 1 3.4.23.46 1.719
3ixj 586Beta-secretase 1 3.4.23.46 1.206
3i25 MV7Beta-secretase 1 3.4.23.46 1.185
2p4j 23IBeta-secretase 1 3.4.23.46 1.036
2qzl IXSBeta-secretase 1 3.4.23.46 0.967
3dm6 757Beta-secretase 1 3.4.23.46 0.953
2f3e AXQBeta-secretase 1 3.4.23.46 0.927
2b8l 5HABeta-secretase 1 3.4.23.46 0.924
2p8h MY9Beta-secretase 1 3.4.23.46 0.911
4fco 0U4Beta-secretase 1 3.4.23.46 0.911
2vkm BSDBeta-secretase 1 3.4.23.46 0.880
2b8v 3BNBeta-secretase 1 3.4.23.46 0.828
2f3f AXFBeta-secretase 1 3.4.23.46 0.817
3dv1 AR9Beta-secretase 1 3.4.23.46 0.812
2vj7 VG6Beta-secretase 1 3.4.23.46 0.810
3duy AFJBeta-secretase 1 3.4.23.46 0.808
3k5d XLIBeta-secretase 1 3.4.23.46 0.806
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.801
2oah QINBeta-secretase 1 3.4.23.46 0.794
3k5f AYHBeta-secretase 1 3.4.23.46 0.792
4gid 0GHBeta-secretase 1 3.4.23.46 0.789
2vnn CM7Beta-secretase 1 3.4.23.46 0.788
2wf4 ZY4Beta-secretase 1 3.4.23.46 0.786
2viz VG4Beta-secretase 1 3.4.23.46 0.782
2vj6 VG5Beta-secretase 1 3.4.23.46 0.782
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.781
2viy VG3Beta-secretase 1 3.4.23.46 0.779
2wez ZYEBeta-secretase 1 3.4.23.46 0.779
2xfj VG5Beta-secretase 1 3.4.23.46 0.778
2vj9 VG7Beta-secretase 1 3.4.23.46 0.774
4dpf 0LGBeta-secretase 1 3.4.23.46 0.773
2iqg F2IBeta-secretase 1 3.4.23.46 0.761
3tpr 5HABeta-secretase 1 3.4.23.46 0.761
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.759
2vnm CM8Beta-secretase 1 3.4.23.46 0.755
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.755
3cid 318Beta-secretase 1 3.4.23.46 0.752
3cib 314Beta-secretase 1 3.4.23.46 0.751
3lpi Z74Beta-secretase 1 3.4.23.46 0.745
3cic 316Beta-secretase 1 3.4.23.46 0.743
2vij C44Beta-secretase 1 3.4.23.46 0.741
2fdp FRPBeta-secretase 1 3.4.23.46 0.736
4dpi 0N1Beta-secretase 1 3.4.23.46 0.732
3k5c 0BIBeta-secretase 1 3.4.23.46 0.721
3own 3OXRenin 3.4.23.15 0.720
3lpj Z75Beta-secretase 1 3.4.23.46 0.719
3own 3OWRenin 3.4.23.15 0.716
1xe5 5FEPlasmepsin-2 3.4.23.39 0.715
1eag A70Candidapepsin-2 3.4.23.24 0.708
2ph6 712Beta-secretase 1 3.4.23.46 0.696
1psa 0ZLPepsin A 3.4.23.1 0.693
1w51 L01Beta-secretase 1 3.4.23.46 0.692
2web PP4Penicillopepsin-1 3.4.23.20 0.689
4exg 916Beta-secretase 1 3.4.23.46 0.682
3nsh 957Beta-secretase 1 3.4.23.46 0.681
4i0i 957Beta-secretase 1 3.4.23.46 0.681
1bxq PP8Penicillopepsin-1 3.4.23.20 0.679
4i0h 1BLBeta-secretase 1 3.4.23.46 0.678
3r2f PB0Beta-secretase 1 3.4.23.46 0.677
1e80 0GQEndothiapepsin 3.4.23.22 0.671
3k5g BJCBeta-secretase 1 3.4.23.46 0.671
3lpk Z76Beta-secretase 1 3.4.23.46 0.671
1bim 0QBRenin 3.4.23.15 0.666
1w6h TITPlasmepsin-2 3.4.23.39 0.665
1gvw 0EMEndothiapepsin 3.4.23.22 0.659
1od1 0QSEndothiapepsin 3.4.23.22 0.659
2p83 MR0Beta-secretase 1 3.4.23.46 0.658
2i0a MUIProtease / 0.657
1zap A70Candidapepsin-2 3.4.23.24 0.656
1gvv 0GMEndothiapepsin 3.4.23.22 0.654
2qi6 MZ8Gag-Pol polyprotein / 0.654
3veu 0GOBeta-secretase 1 3.4.23.46 0.653
2g94 ZPQBeta-secretase 1 3.4.23.46 0.652