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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
3pd2 A3S Threonine--tRNA ligase 6.1.1.3

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3pd2 A3SThreonine--tRNA ligase 6.1.1.3 0.998
2hl1 A3SThreonine--tRNA ligase 6.1.1.3 0.932
4rrr A3TThreonine--tRNA ligase 6.1.1.3 0.917
4rrq A3SThreonine--tRNA ligase 6.1.1.3 0.910
3pd3 A3TThreonine--tRNA ligase 6.1.1.3 0.904
4rr6 A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.854
4rrl A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.839
4rr8 A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.834
4rr9 A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.818
4rrh A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.816
4rrb A3TProbable threonine--tRNA ligase 2 6.1.1.3 0.805
4rr7 A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.797
4rri A3TProbable threonine--tRNA ligase 2 6.1.1.3 0.792
4rra A3TProbable threonine--tRNA ligase 2 6.1.1.3 0.789
4rrf A3SThreonine--tRNA ligase 6.1.1.3 0.780
4rrm A3TProbable threonine--tRNA ligase 2 6.1.1.3 0.774
2hl0 A3SThreonine--tRNA ligase 6.1.1.3 0.773
4rrd A3TProbable threonine--tRNA ligase 2 6.1.1.3 0.771
4rrk A3TProbable threonine--tRNA ligase 2 6.1.1.3 0.762
3pd4 A3GThreonine--tRNA ligase 6.1.1.3 0.756
4rrg A3TThreonine--tRNA ligase 6.1.1.3 0.737
3pd5 TSBThreonine--tRNA ligase 6.1.1.3 0.721
4rrc A3TProbable threonine--tRNA ligase 2 6.1.1.3 0.712
4nbj D3YD-tyrosyl-tRNA(Tyr) deacylase / 0.681
4rrj A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.676
4nbi D3YD-tyrosyl-tRNA(Tyr) deacylase / 0.665
2owu SAHDiphthine synthase / 0.651
2huq SAHDiphthine synthase / 0.650