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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
3cid 318 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3cid 318Beta-secretase 1 3.4.23.46 1.375
3cic 316Beta-secretase 1 3.4.23.46 1.275
3cib 314Beta-secretase 1 3.4.23.46 1.194
2iqg F2IBeta-secretase 1 3.4.23.46 1.152
3lpi Z74Beta-secretase 1 3.4.23.46 1.105
3lpk Z76Beta-secretase 1 3.4.23.46 1.067
3lpj Z75Beta-secretase 1 3.4.23.46 1.066
2p83 MR0Beta-secretase 1 3.4.23.46 0.973
2p8h MY9Beta-secretase 1 3.4.23.46 0.911
3r2f PB0Beta-secretase 1 3.4.23.46 0.904
3k5c 0BIBeta-secretase 1 3.4.23.46 0.901
3ohh 3HHBeta-secretase 1 3.4.23.46 0.900
2b8v 3BNBeta-secretase 1 3.4.23.46 0.884
3nsh 957Beta-secretase 1 3.4.23.46 0.874
4i0i 957Beta-secretase 1 3.4.23.46 0.874
2vnm CM8Beta-secretase 1 3.4.23.46 0.872
2b8l 5HABeta-secretase 1 3.4.23.46 0.866
2viz VG4Beta-secretase 1 3.4.23.46 0.853
2xfj VG5Beta-secretase 1 3.4.23.46 0.853
2vj6 VG5Beta-secretase 1 3.4.23.46 0.852
3ixj 586Beta-secretase 1 3.4.23.46 0.849
4dpi 0N1Beta-secretase 1 3.4.23.46 0.849
4dpf 0LGBeta-secretase 1 3.4.23.46 0.845
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.840
2vj7 VG6Beta-secretase 1 3.4.23.46 0.837
2vj9 VG7Beta-secretase 1 3.4.23.46 0.837
2vij C44Beta-secretase 1 3.4.23.46 0.832
3qi1 C6ABeta-secretase 1 3.4.23.46 0.832
2viy VG3Beta-secretase 1 3.4.23.46 0.826
2xfi XFIBeta-secretase 1 3.4.23.46 0.822
1w51 L01Beta-secretase 1 3.4.23.46 0.818
3i25 MV7Beta-secretase 1 3.4.23.46 0.818
3k5g BJCBeta-secretase 1 3.4.23.46 0.817
4exg 916Beta-secretase 1 3.4.23.46 0.817
2fdp FRPBeta-secretase 1 3.4.23.46 0.813
3ohf 3HFBeta-secretase 1 3.4.23.46 0.811
3veu 0GOBeta-secretase 1 3.4.23.46 0.806
2xfk AA9Beta-secretase 1 3.4.23.46 0.805
4fco 0U4Beta-secretase 1 3.4.23.46 0.794
4k8s 1QTBeta-secretase 1 3.4.23.46 0.793
2vnn CM7Beta-secretase 1 3.4.23.46 0.792
3qbh QBHBeta-secretase 1 3.4.23.46 0.787
2wf4 ZY4Beta-secretase 1 3.4.23.46 0.785
3dv5 BAVBeta-secretase 1 3.4.23.46 0.785
4lxk 1YTBeta-secretase 1 3.4.23.46 0.782
4ke0 1R8Beta-secretase 1 3.4.23.46 0.778
2vie VG0Beta-secretase 1 3.4.23.46 0.773
4gid 0GHBeta-secretase 1 3.4.23.46 0.773
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.771
3n4l 842Beta-secretase 1 3.4.23.46 0.771
4ke1 1R6Beta-secretase 1 3.4.23.46 0.768
3pi5 3P5Beta-secretase 1 3.4.23.46 0.767
2qzl IXSBeta-secretase 1 3.4.23.46 0.762
1e80 0GQEndothiapepsin 3.4.23.22 0.761
3k5f AYHBeta-secretase 1 3.4.23.46 0.761
3ixk 929Beta-secretase 1 3.4.23.46 0.752
4k9h 1QUBeta-secretase 1 3.4.23.46 0.752
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.751
1gvv 0GMEndothiapepsin 3.4.23.22 0.748
3dv1 AR9Beta-secretase 1 3.4.23.46 0.748
2wez ZYEBeta-secretase 1 3.4.23.46 0.744
4ewo 996Beta-secretase 1 3.4.23.46 0.741
2oah QINBeta-secretase 1 3.4.23.46 0.736
3duy AFJBeta-secretase 1 3.4.23.46 0.735
4d89 BXDBeta-secretase 1 3.4.23.46 0.734
2hm1 LIQBeta-secretase 1 3.4.23.46 0.730
2jji 0QSEndothiapepsin 3.4.23.22 0.729
3vf3 0GSBeta-secretase 1 3.4.23.46 0.729
2p4j 23IBeta-secretase 1 3.4.23.46 0.728
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.727
2g94 ZPQBeta-secretase 1 3.4.23.46 0.726
2f3f AXFBeta-secretase 1 3.4.23.46 0.719
2hiz LIJBeta-secretase 1 3.4.23.46 0.712
2f3e AXQBeta-secretase 1 3.4.23.46 0.709
1gvw 0EMEndothiapepsin 3.4.23.22 0.697
1w6h TITPlasmepsin-2 3.4.23.39 0.696
1psa 0ZLPepsin A 3.4.23.1 0.688
2web PP4Penicillopepsin-1 3.4.23.20 0.685
3k5d XLIBeta-secretase 1 3.4.23.46 0.682
1eag A70Candidapepsin-2 3.4.23.24 0.681
1gvt 2ZSEndothiapepsin 3.4.23.22 0.673
3dm6 757Beta-secretase 1 3.4.23.46 0.673
3tne RITCandidapepsin-1 3.4.23.24 0.665
3vg1 0GTBeta-secretase 1 3.4.23.46 0.662
1rne C60Renin 3.4.23.15 0.660
4lxa 1YSBeta-secretase 1 3.4.23.46 0.658
1b6p PI7Gag-Pol polyprotein 3.4.23.16 0.651