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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
4lxa 1YS Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4lxa 1YSBeta-secretase 1 3.4.23.46 1.238
4lxk 1YTBeta-secretase 1 3.4.23.46 1.145
4lxm 1YUBeta-secretase 1 3.4.23.46 1.121
4d89 BXDBeta-secretase 1 3.4.23.46 1.101
3vg1 0GTBeta-secretase 1 3.4.23.46 0.989
3qbh QBHBeta-secretase 1 3.4.23.46 0.945
2hm1 LIQBeta-secretase 1 3.4.23.46 0.938
3veu 0GOBeta-secretase 1 3.4.23.46 0.928
3vf3 0GSBeta-secretase 1 3.4.23.46 0.928
3pi5 3P5Beta-secretase 1 3.4.23.46 0.923
3lpk Z76Beta-secretase 1 3.4.23.46 0.911
3cib 314Beta-secretase 1 3.4.23.46 0.902
3k5g BJCBeta-secretase 1 3.4.23.46 0.874
3k5c 0BIBeta-secretase 1 3.4.23.46 0.873
2iqg F2IBeta-secretase 1 3.4.23.46 0.860
4dpi 0N1Beta-secretase 1 3.4.23.46 0.860
3nsh 957Beta-secretase 1 3.4.23.46 0.850
4i0i 957Beta-secretase 1 3.4.23.46 0.850
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.833
4exg 916Beta-secretase 1 3.4.23.46 0.829
3lpj Z75Beta-secretase 1 3.4.23.46 0.824
2b8v 3BNBeta-secretase 1 3.4.23.46 0.819
3ohh 3HHBeta-secretase 1 3.4.23.46 0.818
4i0h 1BLBeta-secretase 1 3.4.23.46 0.810
2vie VG0Beta-secretase 1 3.4.23.46 0.803
2vnn CM7Beta-secretase 1 3.4.23.46 0.803
2hiz LIJBeta-secretase 1 3.4.23.46 0.802
4ke1 1R6Beta-secretase 1 3.4.23.46 0.802
4ewo 996Beta-secretase 1 3.4.23.46 0.801
4ke0 1R8Beta-secretase 1 3.4.23.46 0.799
2p83 MR0Beta-secretase 1 3.4.23.46 0.797
2viz VG4Beta-secretase 1 3.4.23.46 0.795
2xfj VG5Beta-secretase 1 3.4.23.46 0.792
3ohf 3HFBeta-secretase 1 3.4.23.46 0.792
3dv5 BAVBeta-secretase 1 3.4.23.46 0.787
4k8s 1QTBeta-secretase 1 3.4.23.46 0.785
4dus 0MPBeta-secretase 1 3.4.23.46 0.784
2xfi XFIBeta-secretase 1 3.4.23.46 0.778
4fco 0U4Beta-secretase 1 3.4.23.46 0.778
2viy VG3Beta-secretase 1 3.4.23.46 0.775
3qi1 C6ABeta-secretase 1 3.4.23.46 0.770
1w51 L01Beta-secretase 1 3.4.23.46 0.766
2xfk AA9Beta-secretase 1 3.4.23.46 0.761
4k9h 1QUBeta-secretase 1 3.4.23.46 0.757
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.755
2vij C44Beta-secretase 1 3.4.23.46 0.754
4dh6 0KNBeta-secretase 1 3.4.23.46 0.749
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.744
2vkm BSDBeta-secretase 1 3.4.23.46 0.744
4e5i 0N9Polymerase acidic protein / 0.744
3n4l 842Beta-secretase 1 3.4.23.46 0.734
4i0j 842Beta-secretase 1 3.4.23.46 0.712
3skg PB8Beta-secretase 1 3.4.23.46 0.701
2vnm CM8Beta-secretase 1 3.4.23.46 0.682
3dv1 AR9Beta-secretase 1 3.4.23.46 0.678
2qzl IXSBeta-secretase 1 3.4.23.46 0.675
2fdp FRPBeta-secretase 1 3.4.23.46 0.672
3lpi Z74Beta-secretase 1 3.4.23.46 0.671
1e80 0GQEndothiapepsin 3.4.23.22 0.663
4e5f 0N7Polymerase acidic protein / 0.660
3cid 318Beta-secretase 1 3.4.23.46 0.658
3cic 316Beta-secretase 1 3.4.23.46 0.657