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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
3t7o UPG Glycogenin-1 2.4.1.186

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3t7o UPGGlycogenin-1 2.4.1.186 1.440
1zdg UPGGlycogenin-1 2.4.1.186 0.908
1zdf UPGGlycogenin-1 2.4.1.186 0.868
3rmw UPGGlycogenin-1 2.4.1.186 0.862
5c1h GDUHisto-blood group ABO system transferase / 0.773
5c8r UPGHisto-blood group ABO system transferase / 0.764
5c48 URMHisto-blood group ABO system transferase / 0.761
5c4f UPGHisto-blood group ABO system transferase / 0.757
5c4b UPGHisto-blood group ABO system transferase / 0.752
5c4c UPGHisto-blood group ABO system transferase / 0.738
5c1g GDUHisto-blood group ABO system transferase / 0.734
2vs5 GDUN-acetyllactosaminide alpha-1,3-galactosyltransferase / 0.732
5c3b URMHisto-blood group ABO system transferase / 0.732
3v0o 4GWHisto-blood group ABO system transferase / 0.728
5c47 URMHisto-blood group ABO system transferase / 0.724
2vfz UPFN-acetyllactosaminide alpha-1,3-galactosyltransferase / 0.715
1ss9 UPFLgtC / 0.712
5c1l GDUHisto-blood group ABO system transferase / 0.710
3zgf IUGHisto-blood group ABO system transferase / 0.708
4kc1 WS1Histo-blood group ABO system transferase / 0.704
5c3a URMHisto-blood group ABO system transferase / 0.700
4kc4 WS3Histo-blood group ABO system transferase / 0.690
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.686
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.677
3tij URINucleoside permease / 0.677
4pd6 URINucleoside permease / 0.676
3v0m 5GWHisto-blood group ABO system transferase / 0.674
4azw ATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.665
3lbn GNPGTPase HRas / 0.662
3qc9 ADPRhodopsin kinase / 0.662
3oiw GNPGTPase HRas / 0.661
1zao ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.660
3rs0 GNPGTPase HRas / 0.660
4l9w GNPGTPase HRas / 0.659
4ysj ADPCalmodulin-like domain protein kinase / 0.658
2io7 ANPBifunctional glutathionylspermidine synthetase/amidase / 0.650