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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
3m4p 4AD Asparaginyl-tRNA synthetase, putative

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3m4p 4ADAsparaginyl-tRNA synthetase, putative / 0.929
1c0a AMOAspartate--tRNA ligase / 0.721
4bw9 ANPPyrrolysine--tRNA ligase / 0.714
3a5y KAAElongation factor P--(R)-beta-lysine ligase / 0.703
2x86 ADPADP-L-glycero-D-manno-heptose-6-epimerase / 0.694
1ses AHXSerine--tRNA ligase 6.1.1.11 0.693
4xeo A5AAlanine--tRNA ligase, cytoplasmic / 0.691
3a5z KAAElongation factor P--(R)-beta-lysine ligase / 0.687
4bwa N0BPyrrolysine--tRNA ligase / 0.686
3e9i XAHLysine--tRNA ligase 6.1.1.6 0.677
3ufg ATPGlycine--tRNA ligase alpha subunit / 0.670
3e9h KAALysine--tRNA ligase 6.1.1.6 0.669
2zt5 B4PGlycine--tRNA ligase / 0.668
1olt SAMOxygen-independent coproporphyrinogen III oxidase / 0.659
3mey ATPAmino acid--[acyl-carrier-protein] ligase 1 6.2.1.n2 0.653