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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
4yvh SFG tRNA (guanine-N(1)-)-methyltransferase 2.1.1.228

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4yvh SFGtRNA (guanine-N(1)-)-methyltransferase 2.1.1.228 0.918
4yvj SFGtRNA (guanine-N(1)-)-methyltransferase 2.1.1.228 0.810
4yvk SFGtRNA (guanine-N(1)-)-methyltransferase 2.1.1.228 0.795
1uam SAHtRNA (guanine-N(1)-)-methyltransferase 2.1.1.228 0.759
4h3y SAHtRNA (guanine-N(1)-)-methyltransferase / 0.756
4h3z SAHtRNA (guanine-N(1)-)-methyltransferase / 0.750
4ig6 SAHtRNA (guanine-N(1)-)-methyltransferase / 0.702
4fak SAMRibosomal RNA large subunit methyltransferase H / 0.701
1p9p SAHtRNA (guanine-N(1)-)-methyltransferase / 0.686
3o7b SAHRibosomal RNA small subunit methyltransferase Nep1 / 0.672
1uak SAMtRNA (guanine-N(1)-)-methyltransferase 2.1.1.228 0.669
3bbd SAHRibosomal RNA small subunit methyltransferase Nep1 2.1.1 0.660
4pzk SAHPutative tRNA (cytidine(34)-2'-O)-methyltransferase / 0.655
2yy8 SAMtRNA (cytidine(56)-2'-O)-methyltransferase / 0.651