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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
2hm1 LIQ Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2hm1 LIQBeta-secretase 1 3.4.23.46 1.222
2iqg F2IBeta-secretase 1 3.4.23.46 0.978
3lpj Z75Beta-secretase 1 3.4.23.46 0.942
4lxa 1YSBeta-secretase 1 3.4.23.46 0.938
3ohh 3HHBeta-secretase 1 3.4.23.46 0.911
2p83 MR0Beta-secretase 1 3.4.23.46 0.904
3k5g BJCBeta-secretase 1 3.4.23.46 0.902
2hiz LIJBeta-secretase 1 3.4.23.46 0.898
3lpk Z76Beta-secretase 1 3.4.23.46 0.876
4lxk 1YTBeta-secretase 1 3.4.23.46 0.876
4lxm 1YUBeta-secretase 1 3.4.23.46 0.875
3nsh 957Beta-secretase 1 3.4.23.46 0.869
4i0i 957Beta-secretase 1 3.4.23.46 0.869
4d89 BXDBeta-secretase 1 3.4.23.46 0.852
4dpi 0N1Beta-secretase 1 3.4.23.46 0.828
1w51 L01Beta-secretase 1 3.4.23.46 0.827
4i0j 842Beta-secretase 1 3.4.23.46 0.827
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.823
3qbh QBHBeta-secretase 1 3.4.23.46 0.822
3vg1 0GTBeta-secretase 1 3.4.23.46 0.817
3vf3 0GSBeta-secretase 1 3.4.23.46 0.806
4exg 916Beta-secretase 1 3.4.23.46 0.806
2vie VG0Beta-secretase 1 3.4.23.46 0.804
3ohf 3HFBeta-secretase 1 3.4.23.46 0.804
4k9h 1QUBeta-secretase 1 3.4.23.46 0.804
3skg PB8Beta-secretase 1 3.4.23.46 0.803
2vnn CM7Beta-secretase 1 3.4.23.46 0.780
2vkm BSDBeta-secretase 1 3.4.23.46 0.776
2xfi XFIBeta-secretase 1 3.4.23.46 0.772
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.769
4ke1 1R6Beta-secretase 1 3.4.23.46 0.757
3dv1 AR9Beta-secretase 1 3.4.23.46 0.753
3dv5 BAVBeta-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
4dpf 0LGBeta-secretase 1 3.4.23.46 0.743
3cid 318Beta-secretase 1 3.4.23.46 0.730
4ewo 996Beta-secretase 1 3.4.23.46 0.717
2viz VG4Beta-secretase 1 3.4.23.46 0.716
3r2f PB0Beta-secretase 1 3.4.23.46 0.707
3k5f AYHBeta-secretase 1 3.4.23.46 0.706
2xfj VG5Beta-secretase 1 3.4.23.46 0.704
3cib 314Beta-secretase 1 3.4.23.46 0.704
2vnm CM8Beta-secretase 1 3.4.23.46 0.703
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.702
2xfk AA9Beta-secretase 1 3.4.23.46 0.702
3cic 316Beta-secretase 1 3.4.23.46 0.700
2fdp FRPBeta-secretase 1 3.4.23.46 0.696
2vj6 VG5Beta-secretase 1 3.4.23.46 0.694
3lpi Z74Beta-secretase 1 3.4.23.46 0.694
3k5c 0BIBeta-secretase 1 3.4.23.46 0.686
1gvt 2ZSEndothiapepsin 3.4.23.22 0.684
2b8v 3BNBeta-secretase 1 3.4.23.46 0.683
2vj7 VG6Beta-secretase 1 3.4.23.46 0.680
2viy VG3Beta-secretase 1 3.4.23.46 0.676
2jjj 0QSEndothiapepsin 3.4.23.22 0.673
1eag A70Candidapepsin-2 3.4.23.24 0.671
4i0h 1BLBeta-secretase 1 3.4.23.46 0.670
2f3f AXFBeta-secretase 1 3.4.23.46 0.669
3i25 MV7Beta-secretase 1 3.4.23.46 0.669
2g94 ZPQBeta-secretase 1 3.4.23.46 0.668
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.668
2p8h MY9Beta-secretase 1 3.4.23.46 0.667
2wez ZYEBeta-secretase 1 3.4.23.46 0.667
2wf4 ZY4Beta-secretase 1 3.4.23.46 0.663
1od1 0QSEndothiapepsin 3.4.23.22 0.661
4e5f 0N7Polymerase acidic protein / 0.660
3ixj 586Beta-secretase 1 3.4.23.46 0.659
3k5d XLIBeta-secretase 1 3.4.23.46 0.655
4fco 0U4Beta-secretase 1 3.4.23.46 0.655
3veu 0GOBeta-secretase 1 3.4.23.46 0.654
1zap A70Candidapepsin-2 3.4.23.24 0.651