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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
2zt5 B4P Glycine--tRNA ligase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2zt5 B4PGlycine--tRNA ligase / 1.207
2zt7 ATPGlycine--tRNA ligase / 0.764
4bw9 ANPPyrrolysine--tRNA ligase / 0.741
3vqv ANPPyrrolysine--tRNA ligase / 0.690
3mey ATPAmino acid--[acyl-carrier-protein] ligase 1 6.2.1.n2 0.688
2q7h YLYPyrrolysine--tRNA ligase / 0.678
3a5z KAAElongation factor P--(R)-beta-lysine ligase / 0.674
4bwa N0BPyrrolysine--tRNA ligase / 0.673
3bju ATPLysine--tRNA ligase 6.1.1.6 0.669
3m4p 4ADAsparaginyl-tRNA synthetase, putative / 0.668
1fyf SSAThreonine--tRNA ligase 6.1.1.3 0.662
4xeo A5AAlanine--tRNA ligase, cytoplasmic / 0.662
1ses AHXSerine--tRNA ligase 6.1.1.11 0.661
2ydo ADNAdenosine receptor A2a / 0.659
2zdg ADPD-alanine--D-alanine ligase / 0.658
3ufg ATPGlycine--tRNA ligase alpha subunit / 0.656