sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Distribution of Cavity similarities measured by Shaper

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Cavities are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299

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 cavities

PDB ID	HET	Uniprot Name	EC Number	Cavity Similarity	Align
2pid	YSA	Tyrosine--tRNA ligase, mitochondrial	6.1.1.1	1.000
3zxi	TYA	Tyrosine--tRNA ligase, mitochondrial	6.1.1.1	0.655
1jil	485	Tyrosine--tRNA ligase	/	0.588
1jik	545	Tyrosine--tRNA ligase	/	0.551
1vbm	YSA	Tyrosine--tRNA ligase	6.1.1.1	0.531
5kwv	ANP	Pantothenate synthetase	/	0.472
2quj	TYM	Tryptophan--tRNA ligase, cytoplasmic	6.1.1.2	0.464
3kt8	LTN	Tryptophan--tRNA ligase, cytoplasmic	6.1.1.2	0.452
1vbn	YSA	Tyrosine--tRNA ligase	6.1.1.1	0.451
3jxe	TYM	Tryptophan--tRNA ligase	/	0.443
1r6u	TYM	Tryptophan--tRNA ligase, cytoplasmic	6.1.1.2	0.442