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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
2pid YSA Tyrosine--tRNA ligase, mitochondrial 6.1.1.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2pid YSATyrosine--tRNA ligase, mitochondrial 6.1.1.1 1.129
3ts1 TYATyrosine--tRNA ligase 6.1.1.1 0.918
1jil 485Tyrosine--tRNA ligase / 0.891
1vbm YSATyrosine--tRNA ligase 6.1.1.1 0.875
3zxi TYATyrosine--tRNA ligase, mitochondrial 6.1.1.1 0.841
1vbn YSATyrosine--tRNA ligase 6.1.1.1 0.836
1jik 545Tyrosine--tRNA ligase / 0.768
2j5b TYETyrosine--tRNA ligase 6.1.1.1 0.691
1nuq NXXNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3 / 0.688
2yy5 WSATryptophan--tRNA ligase 6.1.1.2 0.677
1i6l TYMTryptophan--tRNA ligase 6.1.1.2 0.666
1i6k TYMTryptophan--tRNA ligase 6.1.1.2 0.652
3p0j TYEPutative tyrosyl-tRNA synthetase / 0.651
2xq0 BESLeukotriene A-4 hydrolase homolog 3.3.2.6 0.650