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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
2b8v 3BN Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2b8v 3BNBeta-secretase 1 3.4.23.46 1.321
2b8l 5HABeta-secretase 1 3.4.23.46 1.150
4fco 0U4Beta-secretase 1 3.4.23.46 1.130
2p8h MY9Beta-secretase 1 3.4.23.46 1.077
2vj7 VG6Beta-secretase 1 3.4.23.46 1.025
2xfi XFIBeta-secretase 1 3.4.23.46 1.010
2vie VG0Beta-secretase 1 3.4.23.46 1.008
2wf4 ZY4Beta-secretase 1 3.4.23.46 1.006
2viz VG4Beta-secretase 1 3.4.23.46 1.004
2vj6 VG5Beta-secretase 1 3.4.23.46 1.002
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.999
2xfk AA9Beta-secretase 1 3.4.23.46 0.998
2vj9 VG7Beta-secretase 1 3.4.23.46 0.997
2vnm CM8Beta-secretase 1 3.4.23.46 0.993
2xfj VG5Beta-secretase 1 3.4.23.46 0.984
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.974
2vij C44Beta-secretase 1 3.4.23.46 0.970
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.966
2vnn CM7Beta-secretase 1 3.4.23.46 0.948
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.943
2wez ZYEBeta-secretase 1 3.4.23.46 0.942
3i25 MV7Beta-secretase 1 3.4.23.46 0.942
4dpf 0LGBeta-secretase 1 3.4.23.46 0.937
2viy VG3Beta-secretase 1 3.4.23.46 0.927
2qzl IXSBeta-secretase 1 3.4.23.46 0.913
3ixj 586Beta-secretase 1 3.4.23.46 0.905
4gid 0GHBeta-secretase 1 3.4.23.46 0.899
2vkm BSDBeta-secretase 1 3.4.23.46 0.895
3nsh 957Beta-secretase 1 3.4.23.46 0.895
4i0i 957Beta-secretase 1 3.4.23.46 0.895
3tpr 5HABeta-secretase 1 3.4.23.46 0.888
3cid 318Beta-secretase 1 3.4.23.46 0.884
3k5g BJCBeta-secretase 1 3.4.23.46 0.882
3k5c 0BIBeta-secretase 1 3.4.23.46 0.872
3veu 0GOBeta-secretase 1 3.4.23.46 0.866
3cic 316Beta-secretase 1 3.4.23.46 0.862
3lpi Z74Beta-secretase 1 3.4.23.46 0.857
3ohh 3HHBeta-secretase 1 3.4.23.46 0.852
2p4j 23IBeta-secretase 1 3.4.23.46 0.845
2p83 MR0Beta-secretase 1 3.4.23.46 0.839
4ewo 996Beta-secretase 1 3.4.23.46 0.839
3ohf 3HFBeta-secretase 1 3.4.23.46 0.838
4lxm 1YUBeta-secretase 1 3.4.23.46 0.834
4k9h 1QUBeta-secretase 1 3.4.23.46 0.832
3ixk 929Beta-secretase 1 3.4.23.46 0.828
3dv5 BAVBeta-secretase 1 3.4.23.46 0.819
4lxa 1YSBeta-secretase 1 3.4.23.46 0.819
4lxk 1YTBeta-secretase 1 3.4.23.46 0.818
4exg 916Beta-secretase 1 3.4.23.46 0.816
4dus 0MPBeta-secretase 1 3.4.23.46 0.808
4i0j 842Beta-secretase 1 3.4.23.46 0.804
1w51 L01Beta-secretase 1 3.4.23.46 0.801
4i0h 1BLBeta-secretase 1 3.4.23.46 0.788
4ke0 1R8Beta-secretase 1 3.4.23.46 0.788
3cib 314Beta-secretase 1 3.4.23.46 0.781
3qi1 C6ABeta-secretase 1 3.4.23.46 0.775
4dh6 0KNBeta-secretase 1 3.4.23.46 0.775
4k8s 1QTBeta-secretase 1 3.4.23.46 0.770
3r2f PB0Beta-secretase 1 3.4.23.46 0.760
3k5f AYHBeta-secretase 1 3.4.23.46 0.758
3pi5 3P5Beta-secretase 1 3.4.23.46 0.749
3n4l 842Beta-secretase 1 3.4.23.46 0.747
4ke1 1R6Beta-secretase 1 3.4.23.46 0.742
3qbh QBHBeta-secretase 1 3.4.23.46 0.735
3lpk Z76Beta-secretase 1 3.4.23.46 0.730
2iqg F2IBeta-secretase 1 3.4.23.46 0.729
3dm6 757Beta-secretase 1 3.4.23.46 0.728
3duy AFJBeta-secretase 1 3.4.23.46 0.723
3k5d XLIBeta-secretase 1 3.4.23.46 0.718
2f3f AXFBeta-secretase 1 3.4.23.46 0.714
2fdp FRPBeta-secretase 1 3.4.23.46 0.714
2is0 I03Beta-secretase 1 3.4.23.46 0.710
1psa 0ZLPepsin A 3.4.23.1 0.704
1od1 0QSEndothiapepsin 3.4.23.22 0.697
2f3e AXQBeta-secretase 1 3.4.23.46 0.688
3dv1 AR9Beta-secretase 1 3.4.23.46 0.688
2g94 ZPQBeta-secretase 1 3.4.23.46 0.685
2hm1 LIQBeta-secretase 1 3.4.23.46 0.683
2hiz LIJBeta-secretase 1 3.4.23.46 0.677
3own 3OWRenin 3.4.23.15 0.676
3own 3OXRenin 3.4.23.15 0.673
1e80 0GQEndothiapepsin 3.4.23.22 0.672
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.670
1eag A70Candidapepsin-2 3.4.23.24 0.670
2oah QINBeta-secretase 1 3.4.23.46 0.665
4dpi 0N1Beta-secretase 1 3.4.23.46 0.662
1w6h TITPlasmepsin-2 3.4.23.39 0.660
1e82 M90Endothiapepsin 3.4.23.22 0.659
2irz I02Beta-secretase 1 3.4.23.46 0.659
1b6k PI5Gag-Pol polyprotein 3.4.23.16 0.654
2g20 L1ARenin 3.4.23.15 0.653
3lpj Z75Beta-secretase 1 3.4.23.46 0.651