Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
1gvv 0GM Endothiapepsin 3.4.23.22

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1gvv 0GMEndothiapepsin 3.4.23.22 1.224
2jjj 0QSEndothiapepsin 3.4.23.22 0.898
1od1 0QSEndothiapepsin 3.4.23.22 0.874
1gvw 0EMEndothiapepsin 3.4.23.22 0.857
1e80 0GQEndothiapepsin 3.4.23.22 0.849
1ppk IVVPenicillopepsin-1 3.4.23.20 0.839
1e81 M91Endothiapepsin 3.4.23.22 0.824
2jji 0QSEndothiapepsin 3.4.23.22 0.816
1w6h TITPlasmepsin-2 3.4.23.39 0.786
1bxq PP8Penicillopepsin-1 3.4.23.20 0.785
1bxo PP7Penicillopepsin-1 3.4.23.20 0.771
2p4j 23IBeta-secretase 1 3.4.23.46 0.769
1e82 M90Endothiapepsin 3.4.23.22 0.765
1qrp HH0Pepsin A-4 3.4.23.1 0.760
3dm6 757Beta-secretase 1 3.4.23.46 0.757
1ppl 1Z7Penicillopepsin-1 3.4.23.20 0.752
2p8h MY9Beta-secretase 1 3.4.23.46 0.752
3cid 318Beta-secretase 1 3.4.23.46 0.748
3k5g BJCBeta-secretase 1 3.4.23.46 0.737
1eag A70Candidapepsin-2 3.4.23.24 0.725
2xfj VG5Beta-secretase 1 3.4.23.46 0.723
2f3e AXQBeta-secretase 1 3.4.23.46 0.720
2vj6 VG5Beta-secretase 1 3.4.23.46 0.720
3duy AFJBeta-secretase 1 3.4.23.46 0.718
3lpj Z75Beta-secretase 1 3.4.23.46 0.718
3dv1 AR9Beta-secretase 1 3.4.23.46 0.717
1xe6 5FPPlasmepsin-2 3.4.23.39 0.716
2vie VG0Beta-secretase 1 3.4.23.46 0.712
2fdp FRPBeta-secretase 1 3.4.23.46 0.711
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.710
3ixj 586Beta-secretase 1 3.4.23.46 0.710
4dpi 0N1Beta-secretase 1 3.4.23.46 0.709
3nsh 957Beta-secretase 1 3.4.23.46 0.707
4i0i 957Beta-secretase 1 3.4.23.46 0.707
2p83 MR0Beta-secretase 1 3.4.23.46 0.706
2vj7 VG6Beta-secretase 1 3.4.23.46 0.705
1psa 0ZLPepsin A 3.4.23.1 0.704
2viy VG3Beta-secretase 1 3.4.23.46 0.701
4k8s 1QTBeta-secretase 1 3.4.23.46 0.700
2vj9 VG7Beta-secretase 1 3.4.23.46 0.699
3i25 MV7Beta-secretase 1 3.4.23.46 0.698
4fco 0U4Beta-secretase 1 3.4.23.46 0.698
2b8l 5HABeta-secretase 1 3.4.23.46 0.696
3lpk Z76Beta-secretase 1 3.4.23.46 0.696
4dh6 0KNBeta-secretase 1 3.4.23.46 0.696
2qzl IXSBeta-secretase 1 3.4.23.46 0.693
3k5c 0BIBeta-secretase 1 3.4.23.46 0.692
3veu 0GOBeta-secretase 1 3.4.23.46 0.691
4i0h 1BLBeta-secretase 1 3.4.23.46 0.691
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.689
3k5f AYHBeta-secretase 1 3.4.23.46 0.688
4ke1 1R6Beta-secretase 1 3.4.23.46 0.685
2wf0 ZY0Beta-secretase 1 3.4.23.46 0.682
2wez ZYEBeta-secretase 1 3.4.23.46 0.681
4k9h 1QUBeta-secretase 1 3.4.23.46 0.676
2g94 ZPQBeta-secretase 1 3.4.23.46 0.675
2hiz LIJBeta-secretase 1 3.4.23.46 0.674
3dcr KVSProtease / 0.674
1bim 0QBRenin 3.4.23.15 0.671
3k5d XLIBeta-secretase 1 3.4.23.46 0.670
2f3f AXFBeta-secretase 1 3.4.23.46 0.666
1xe5 5FEPlasmepsin-2 3.4.23.39 0.665
1w51 L01Beta-secretase 1 3.4.23.46 0.664
2fxd DR7Pol polyprotein / 0.664
4dpf 0LGBeta-secretase 1 3.4.23.46 0.655
3ixk 929Beta-secretase 1 3.4.23.46 0.654