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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
2web PP4 Penicillopepsin-1 3.4.23.20

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2web PP4Penicillopepsin-1 3.4.23.20 1.135
1ppm 0P1Penicillopepsin-1 3.4.23.20 0.916
1ppl 1Z7Penicillopepsin-1 3.4.23.20 0.903
1ppk IVVPenicillopepsin-1 3.4.23.20 0.828
2wed PP6Penicillopepsin-1 3.4.23.20 0.815
1gvw 0EMEndothiapepsin 3.4.23.22 0.770
1bxo PP7Penicillopepsin-1 3.4.23.20 0.768
1e81 M91Endothiapepsin 3.4.23.22 0.734
3k5g BJCBeta-secretase 1 3.4.23.46 0.727
2jji 0QSEndothiapepsin 3.4.23.22 0.724
2f3e AXQBeta-secretase 1 3.4.23.46 0.719
1od1 0QSEndothiapepsin 3.4.23.22 0.717
2f3f AXFBeta-secretase 1 3.4.23.46 0.716
2p4j 23IBeta-secretase 1 3.4.23.46 0.709
1qrp HH0Pepsin A-4 3.4.23.1 0.705
1eag A70Candidapepsin-2 3.4.23.24 0.702
3dv1 AR9Beta-secretase 1 3.4.23.46 0.697
3dm6 757Beta-secretase 1 3.4.23.46 0.695
1e82 M90Endothiapepsin 3.4.23.22 0.692
3veu 0GOBeta-secretase 1 3.4.23.46 0.690
3ixk 929Beta-secretase 1 3.4.23.46 0.689
3cid 318Beta-secretase 1 3.4.23.46 0.685
1gvt 2ZSEndothiapepsin 3.4.23.22 0.680
2p8h MY9Beta-secretase 1 3.4.23.46 0.677
3duy AFJBeta-secretase 1 3.4.23.46 0.674
1psa 0ZLPepsin A 3.4.23.1 0.668
2b8l 5HABeta-secretase 1 3.4.23.46 0.668
2jjj 0QSEndothiapepsin 3.4.23.22 0.667
1rne C60Renin 3.4.23.15 0.666
2qzl IXSBeta-secretase 1 3.4.23.46 0.665
2wea PP6Penicillopepsin-1 3.4.23.20 0.664
3tne RITCandidapepsin-1 3.4.23.24 0.664
3k5d XLIBeta-secretase 1 3.4.23.46 0.662
2g94 ZPQBeta-secretase 1 3.4.23.46 0.661
3prs RITEndothiapepsin 3.4.23.22 0.661
3ixj 586Beta-secretase 1 3.4.23.46 0.659
4j54 G52Gag-Pol polyprotein 3.4.23.16 0.658
3lpj Z75Beta-secretase 1 3.4.23.46 0.652
2g20 L1ARenin 3.4.23.15 0.650