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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
3kt3 TYM Tryptophan--tRNA ligase, cytoplasmic 6.1.1.2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3kt3 TYMTryptophan--tRNA ligase, cytoplasmic 6.1.1.2 1.331
1r6t TYMTryptophan--tRNA ligase, cytoplasmic 6.1.1.2 1.238
3jxe TYMTryptophan--tRNA ligase / 1.118
1r6u TYMTryptophan--tRNA ligase, cytoplasmic 6.1.1.2 0.945
4j75 TYMTryptophan--tRNA ligase / 0.916
3kt8 LTNTryptophan--tRNA ligase, cytoplasmic 6.1.1.2 0.848
2quj TYMTryptophan--tRNA ligase, cytoplasmic 6.1.1.2 0.845
1i6k TYMTryptophan--tRNA ligase 6.1.1.2 0.728
1i6l TYMTryptophan--tRNA ligase 6.1.1.2 0.719
3coy 53HPantothenate synthetase 6.3.2.1 0.719
3ag6 PAJPantothenate synthetase / 0.699
2x3f APCPantothenate synthetase / 0.689
3coz 54HPantothenate synthetase 6.3.2.1 0.668
1xjq ADPBifunctional 3'-phosphoadenosine 5'-phosphosulfate synthase 1 2.7.1.25 0.662
3qtt ANPPantothenate synthetase / 0.662
1n2g APCPantothenate synthetase 6.3.2.1 0.660
1n2e APCPantothenate synthetase 6.3.2.1 0.658
2qrd ADP5'-AMP-activated protein kinase subunit gamma / 0.658
1nzx NADAldehyde dehydrogenase, mitochondrial 1.2.1.3 0.656
4fdn FADDecaprenylphosphoryl-beta-D-ribose oxidase / 0.651
4nmj NAPAldehyde dehydrogenase / 0.651