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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
1gvw 0EM Endothiapepsin 3.4.23.22

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1gvw 0EMEndothiapepsin 3.4.23.22 1.304
2jjj 0QSEndothiapepsin 3.4.23.22 0.982
2jji 0QSEndothiapepsin 3.4.23.22 0.971
1od1 0QSEndothiapepsin 3.4.23.22 0.906
1e80 0GQEndothiapepsin 3.4.23.22 0.889
1ppk IVVPenicillopepsin-1 3.4.23.20 0.884
1ppm 0P1Penicillopepsin-1 3.4.23.20 0.868
1gvv 0GMEndothiapepsin 3.4.23.22 0.857
1ppl 1Z7Penicillopepsin-1 3.4.23.20 0.856
1bxq PP8Penicillopepsin-1 3.4.23.20 0.853
1bxo PP7Penicillopepsin-1 3.4.23.20 0.852
1qrp HH0Pepsin A-4 3.4.23.1 0.849
1e81 M91Endothiapepsin 3.4.23.22 0.816
1psa 0ZLPepsin A 3.4.23.1 0.791
1gvt 2ZSEndothiapepsin 3.4.23.22 0.788
2web PP4Penicillopepsin-1 3.4.23.20 0.770
3dv1 AR9Beta-secretase 1 3.4.23.46 0.750
2qzl IXSBeta-secretase 1 3.4.23.46 0.738
2wed PP6Penicillopepsin-1 3.4.23.20 0.736
3prs RITEndothiapepsin 3.4.23.22 0.734
1e82 M90Endothiapepsin 3.4.23.22 0.730
2g94 ZPQBeta-secretase 1 3.4.23.46 0.726
3dv5 BAVBeta-secretase 1 3.4.23.46 0.719
2vj6 VG5Beta-secretase 1 3.4.23.46 0.715
2viy VG3Beta-secretase 1 3.4.23.46 0.713
3pww ROCEndothiapepsin 3.4.23.22 0.710
2iqg F2IBeta-secretase 1 3.4.23.46 0.704
3veu 0GOBeta-secretase 1 3.4.23.46 0.703
3cid 318Beta-secretase 1 3.4.23.46 0.697
3k5f AYHBeta-secretase 1 3.4.23.46 0.695
1rne C60Renin 3.4.23.15 0.690
2fdp FRPBeta-secretase 1 3.4.23.46 0.688
2f3e AXQBeta-secretase 1 3.4.23.46 0.684
1eag A70Candidapepsin-2 3.4.23.24 0.682
1zap A70Candidapepsin-2 3.4.23.24 0.674
2g20 L1ARenin 3.4.23.15 0.674
3k5g BJCBeta-secretase 1 3.4.23.46 0.661
4exg 916Beta-secretase 1 3.4.23.46 0.661
2f3f AXFBeta-secretase 1 3.4.23.46 0.660
4k8s 1QTBeta-secretase 1 3.4.23.46 0.660
3ixk 929Beta-secretase 1 3.4.23.46 0.659
4dus 0MPBeta-secretase 1 3.4.23.46 0.655
3pi0 F91Endothiapepsin 3.4.23.22 0.653
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.652