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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
3bbh SFG Ribosomal RNA small subunit methyltransferase Nep1 2.1.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3bbh SFGRibosomal RNA small subunit methyltransferase Nep1 2.1.1 0.953
3bbd SAHRibosomal RNA small subunit methyltransferase Nep1 2.1.1 0.787
3o7b SAHRibosomal RNA small subunit methyltransferase Nep1 / 0.699
4fak SAMRibosomal RNA large subunit methyltransferase H / 0.694
4jwh SAHtRNA (guanine(9)-N1)-methyltransferase / 0.693
2egw SAHRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.689
4jwf SAHtRNA (guanine(9)-N1)-methyltransferase / 0.673
3oii SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.667
3oij SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.666
4cng SAHSpoU rRNA methylase / 0.663
2cx8 SAHRibosomal RNA small subunit methyltransferase E / 0.661
4cnf MTASpoU rRNA methylase / 0.660
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.656