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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
1gvt 2ZS Endothiapepsin 3.4.23.22

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1gvt 2ZSEndothiapepsin 3.4.23.22 1.492
2jjj 0QSEndothiapepsin 3.4.23.22 1.085
2jji 0QSEndothiapepsin 3.4.23.22 1.007
1od1 0QSEndothiapepsin 3.4.23.22 0.977
1e82 M90Endothiapepsin 3.4.23.22 0.946
1e81 M91Endothiapepsin 3.4.23.22 0.854
1ppm 0P1Penicillopepsin-1 3.4.23.20 0.832
1eag A70Candidapepsin-2 3.4.23.24 0.824
1ppk IVVPenicillopepsin-1 3.4.23.20 0.818
1bxo PP7Penicillopepsin-1 3.4.23.20 0.811
1ppl 1Z7Penicillopepsin-1 3.4.23.20 0.809
1e80 0GQEndothiapepsin 3.4.23.22 0.800
1psa 0ZLPepsin A 3.4.23.1 0.791
1gvw 0EMEndothiapepsin 3.4.23.22 0.788
1bim 0QBRenin 3.4.23.15 0.741
1qrp HH0Pepsin A-4 3.4.23.1 0.737
3dv1 AR9Beta-secretase 1 3.4.23.46 0.734
1xe5 5FEPlasmepsin-2 3.4.23.39 0.731
3pww ROCEndothiapepsin 3.4.23.22 0.729
1bil 0IURenin 3.4.23.15 0.724
2hiz LIJBeta-secretase 1 3.4.23.46 0.699
1rne C60Renin 3.4.23.15 0.697
2p4j 23IBeta-secretase 1 3.4.23.46 0.692
3d91 REMRenin 3.4.23.15 0.690
3cib 314Beta-secretase 1 3.4.23.46 0.685
2hm1 LIQBeta-secretase 1 3.4.23.46 0.684
3prs RITEndothiapepsin 3.4.23.22 0.681
2web PP4Penicillopepsin-1 3.4.23.20 0.680
2iqg F2IBeta-secretase 1 3.4.23.46 0.679
1zap A70Candidapepsin-2 3.4.23.24 0.676
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.674
3cid 318Beta-secretase 1 3.4.23.46 0.673
3lpj Z75Beta-secretase 1 3.4.23.46 0.673
3veu 0GOBeta-secretase 1 3.4.23.46 0.669
2b8l 5HABeta-secretase 1 3.4.23.46 0.668
2g20 L1ARenin 3.4.23.15 0.667
3ohf 3HFBeta-secretase 1 3.4.23.46 0.666
2wf3 ZY3Beta-secretase 1 3.4.23.46 0.665
3tne RITCandidapepsin-1 3.4.23.24 0.662
2f3f AXFBeta-secretase 1 3.4.23.46 0.660
1siv PSIGag-Pol polyprotein / 0.654