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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
1zdg UPG Glycogenin-1 2.4.1.186

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1zdg UPGGlycogenin-1 2.4.1.186 1.225
1zdf UPGGlycogenin-1 2.4.1.186 1.101
3rmw UPGGlycogenin-1 2.4.1.186 0.979
3t7o UPGGlycogenin-1 2.4.1.186 0.908
3v0m 5GWHisto-blood group ABO system transferase / 0.889
2vs5 GDUN-acetyllactosaminide alpha-1,3-galactosyltransferase / 0.791
3zgf IUGHisto-blood group ABO system transferase / 0.783
5c3a URMHisto-blood group ABO system transferase / 0.778
5c3b URMHisto-blood group ABO system transferase / 0.776
2vfz UPFN-acetyllactosaminide alpha-1,3-galactosyltransferase / 0.763
4kc1 WS1Histo-blood group ABO system transferase / 0.758
4kc4 WS3Histo-blood group ABO system transferase / 0.752
5c47 URMHisto-blood group ABO system transferase / 0.749
5c48 URMHisto-blood group ABO system transferase / 0.749
5c1h GDUHisto-blood group ABO system transferase / 0.747
5c1l GDUHisto-blood group ABO system transferase / 0.747
3v0n 4GWHisto-blood group ABO system transferase / 0.744
5c8r UPGHisto-blood group ABO system transferase / 0.740
4kc2 WS2Histo-blood group ABO system transferase / 0.734
3v0o 4GWHisto-blood group ABO system transferase / 0.713
5c4c UPGHisto-blood group ABO system transferase / 0.711
5c4f UPGHisto-blood group ABO system transferase / 0.711
1g8o U5PN-acetyllactosaminide alpha-1,3-galactosyltransferase / 0.700
5c4b UPGHisto-blood group ABO system transferase / 0.696
1ga8 UPFLgtC / 0.688
5c1g GDUHisto-blood group ABO system transferase / 0.685
1g9r UPFLgtC / 0.682
2vkd UPGCytotoxin L / 0.675
1oqm UD2Beta-1,4-galactosyltransferase 1 / 0.667
1ss9 UPFLgtC / 0.657
4pda CTNNucleoside permease / 0.651
3i5x ANPATP-dependent RNA helicase MSS116, mitochondrial 3.6.4.13 0.650