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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
3k5f AYH Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3k5f AYHBeta-secretase 1 3.4.23.46 1.258
3dv1 AR9Beta-secretase 1 3.4.23.46 1.026
2fdp FRPBeta-secretase 1 3.4.23.46 1.016
2f3f AXFBeta-secretase 1 3.4.23.46 0.954
3k5d XLIBeta-secretase 1 3.4.23.46 0.940
3duy AFJBeta-secretase 1 3.4.23.46 0.909
2f3e AXQBeta-secretase 1 3.4.23.46 0.898
2g94 ZPQBeta-secretase 1 3.4.23.46 0.883
2qzl IXSBeta-secretase 1 3.4.23.46 0.855
3ixj 586Beta-secretase 1 3.4.23.46 0.828
3i25 MV7Beta-secretase 1 3.4.23.46 0.824
2p4j 23IBeta-secretase 1 3.4.23.46 0.816
2p83 MR0Beta-secretase 1 3.4.23.46 0.801
2iqg F2IBeta-secretase 1 3.4.23.46 0.800
2wez ZYEBeta-secretase 1 3.4.23.46 0.799
3dm6 757Beta-secretase 1 3.4.23.46 0.797
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.796
2hiz LIJBeta-secretase 1 3.4.23.46 0.794
2vie VG0Beta-secretase 1 3.4.23.46 0.792
3ixk 929Beta-secretase 1 3.4.23.46 0.792
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.782
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.778
3cib 314Beta-secretase 1 3.4.23.46 0.776
3lpj Z75Beta-secretase 1 3.4.23.46 0.767
2viy VG3Beta-secretase 1 3.4.23.46 0.765
3cid 318Beta-secretase 1 3.4.23.46 0.761
2b8v 3BNBeta-secretase 1 3.4.23.46 0.758
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.755
4dpf 0LGBeta-secretase 1 3.4.23.46 0.751
2b8l 5HABeta-secretase 1 3.4.23.46 0.747
4fco 0U4Beta-secretase 1 3.4.23.46 0.746
3k5g BJCBeta-secretase 1 3.4.23.46 0.744
4dpi 0N1Beta-secretase 1 3.4.23.46 0.738
3ohh 3HHBeta-secretase 1 3.4.23.46 0.734
1eag A70Candidapepsin-2 3.4.23.24 0.729
3lpk Z76Beta-secretase 1 3.4.23.46 0.729
1zap A70Candidapepsin-2 3.4.23.24 0.726
2vj7 VG6Beta-secretase 1 3.4.23.46 0.725
3veu 0GOBeta-secretase 1 3.4.23.46 0.717
3lpi Z74Beta-secretase 1 3.4.23.46 0.715
1od1 0QSEndothiapepsin 3.4.23.22 0.712
2vij C44Beta-secretase 1 3.4.23.46 0.707
2hm1 LIQBeta-secretase 1 3.4.23.46 0.706
2oah QINBeta-secretase 1 3.4.23.46 0.706
3own 3OXRenin 3.4.23.15 0.706
4k9h 1QUBeta-secretase 1 3.4.23.46 0.705
3ohf 3HFBeta-secretase 1 3.4.23.46 0.704
4gid 0GHBeta-secretase 1 3.4.23.46 0.704
3cic 316Beta-secretase 1 3.4.23.46 0.703
3k5c 0BIBeta-secretase 1 3.4.23.46 0.701
1e80 0GQEndothiapepsin 3.4.23.22 0.700
1gvw 0EMEndothiapepsin 3.4.23.22 0.695
1w51 L01Beta-secretase 1 3.4.23.46 0.693
1bil 0IURenin 3.4.23.15 0.691
1gvv 0GMEndothiapepsin 3.4.23.22 0.688
4ewo 996Beta-secretase 1 3.4.23.46 0.684
4k8s 1QTBeta-secretase 1 3.4.23.46 0.679
2xfi XFIBeta-secretase 1 3.4.23.46 0.677
1w6h TITPlasmepsin-2 3.4.23.39 0.675
2wf4 ZY4Beta-secretase 1 3.4.23.46 0.675
1psa 0ZLPepsin A 3.4.23.1 0.668
3dcr KVSProtease / 0.665
3l5e BDWBeta-secretase 1 3.4.23.46 0.664
2jji 0QSEndothiapepsin 3.4.23.22 0.662
2xfk AA9Beta-secretase 1 3.4.23.46 0.661
2ph6 712Beta-secretase 1 3.4.23.46 0.657