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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
3jxe TYM Tryptophan--tRNA ligase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3jxe TYMTryptophan--tRNA ligase / 1.286
3kt3 TYMTryptophan--tRNA ligase, cytoplasmic 6.1.1.2 1.118
1r6t TYMTryptophan--tRNA ligase, cytoplasmic 6.1.1.2 1.028
1r6u TYMTryptophan--tRNA ligase, cytoplasmic 6.1.1.2 0.928
4j75 TYMTryptophan--tRNA ligase / 0.835
2quj TYMTryptophan--tRNA ligase, cytoplasmic 6.1.1.2 0.828
3kt8 LTNTryptophan--tRNA ligase, cytoplasmic 6.1.1.2 0.795
1i6k TYMTryptophan--tRNA ligase 6.1.1.2 0.724
1gtr ATPGlutamine--tRNA ligase 6.1.1.18 0.666
4lv8 ADPRhoptry protein 5 C / 0.657
1qrs ATPGlutamine--tRNA ligase 6.1.1.18 0.652
2vxo XMPGMP synthase [glutamine-hydrolyzing] 6.3.5.2 0.650