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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
2i4m PSD Proline--tRNA ligase 6.1.1.15

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2i4m PSDProline--tRNA ligase 6.1.1.15 1.020
4bwa N0BPyrrolysine--tRNA ligase / 0.733
1nj5 P5AProline--tRNA ligase / 0.730
1fyf SSAThreonine--tRNA ligase 6.1.1.3 0.715
1c0a AMOAspartate--tRNA ligase / 0.706
3e9h KAALysine--tRNA ligase 6.1.1.6 0.686
4xeo A5AAlanine--tRNA ligase, cytoplasmic / 0.683
1nj6 A5AProline--tRNA ligase / 0.677
3a5z KAAElongation factor P--(R)-beta-lysine ligase / 0.676
2q7h YLYPyrrolysine--tRNA ligase / 0.670
1b7y FYAPhenylalanine--tRNA ligase alpha subunit 6.1.1.20 0.665
3a5y KAAElongation factor P--(R)-beta-lysine ligase / 0.665
1drt PCVClavaminate synthase 1 1.14.11.21 0.662
4e5i 0N9Polymerase acidic protein / 0.660