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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
3ufg ATP Glycine--tRNA ligase alpha subunit

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3ufg ATPGlycine--tRNA ligase alpha subunit / 1.018
3e9i XAHLysine--tRNA ligase 6.1.1.6 0.712
4bw9 ANPPyrrolysine--tRNA ligase / 0.700
1fyf SSAThreonine--tRNA ligase 6.1.1.3 0.683
3m4p 4ADAsparaginyl-tRNA synthetase, putative / 0.670
2x86 ADPADP-L-glycero-D-manno-heptose-6-epimerase / 0.669
3e9h KAALysine--tRNA ligase 6.1.1.6 0.667
4h2u ATPAmino acid--[acyl-carrier-protein] ligase 1 6.2.1.n2 0.666
3a5z KAAElongation factor P--(R)-beta-lysine ligase / 0.665
2r7n ADP5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase / 0.663
4ffr ATPUncharacterized protein / 0.660
2d32 ANPGlutamate--cysteine ligase 6.3.2.2 0.656
2zt5 B4PGlycine--tRNA ligase / 0.656
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.656
3dzd ADPTranscriptional regulator (NtrC family) / 0.655
4xeo A5AAlanine--tRNA ligase, cytoplasmic / 0.651