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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
2vkd UPG Cytotoxin L

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2vkd UPGCytotoxin L / 1.293
3srz UPGToxin A / 0.997
2wzg UPGUncharacterized protein / 0.748
3jsz UPGUncharacterized protein / 0.714
4kc1 WS1Histo-blood group ABO system transferase / 0.678
3rmw UPGGlycogenin-1 2.4.1.186 0.676
1zdg UPGGlycogenin-1 2.4.1.186 0.675
1zdf UPGGlycogenin-1 2.4.1.186 0.669
5eg3 ACPFibroblast growth factor receptor 2 / 0.666
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.665
4pb2 5UDNucleoside permease / 0.665
3v0o 4GWHisto-blood group ABO system transferase / 0.661
3v0n 4GWHisto-blood group ABO system transferase / 0.660
5c1g GDUHisto-blood group ABO system transferase / 0.660
4kc4 WS3Histo-blood group ABO system transferase / 0.659
1g9r UPFLgtC / 0.654
4fkz UD1UDP-N-acetylglucosamine 2-epimerase 5.1.3.14 0.654
2wvl GDDMannosyl-3-phosphogylcerate synthase / 0.651