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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
3ufl 508 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3ufl 508Beta-secretase 1 3.4.23.46 1.093
3t6i NC8Endothiapepsin 3.4.23.22 0.706
3vyf VYFRenin 3.4.23.15 0.668
3ckt YDPGag-Pol polyprotein 3.4.23.16 0.663
3qro NK9Gag-Pol polyprotein 3.4.23.16 0.663
4o3m ADPBloom syndrome protein 3.6.4.12 0.661
1nmd ATPMajor actin / 0.660
1xxj UNCUricase 1.7.3.3 0.660
2cgw 3C3Serine/threonine-protein kinase Chk1 2.7.11.1 0.660
2d09 FLVBiflaviolin synthase CYP158A2 / 0.660
2fzk CTPAspartate carbamoyltransferase regulatory chain / 0.660
2oap ANPType II secretion system protein (GspE-2) / 0.660
2z7q ACPRibosomal protein S6 kinase alpha-1 2.7.11.1 0.660
3f8p NADNADH oxidase/thioredoxin reductase / 0.660
3fzf ATPHeat shock cognate 71 kDa protein / 0.660
3o9l LPNRenin 3.4.23.15 0.660
3u9d ATPActin, alpha skeletal muscle / 0.660
3ypi PGHTriosephosphate isomerase 5.3.1.1 0.660
3zzn ADPL-lactate dehydrogenase / 0.660
4e5l DBHPolymerase acidic protein / 0.660
5bnt NAPAspartate-semialdehyde dehydrogenase 1.2.1.11 0.660
3fwy ADPLight-independent protochlorophyllide reductase iron-sulfur ATP-binding protein / 0.657
4cdg ADPBloom syndrome protein 3.6.4.12 0.656
1fp6 ADPNitrogenase iron protein 1 1.18.6.1 0.654
3kjg ADPCO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC / 0.654
4ke1 1R6Beta-secretase 1 3.4.23.46 0.652
2v13 C40Renin 3.4.23.15 0.650