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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
3kmt SAH Histone H3K27 methylase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3kmt SAHHistone H3K27 methylase / 1.004
5jhn SAMHistone-lysine N-methyltransferase EHMT2 / 0.844
3hna SAHHistone-lysine N-methyltransferase EHMT1 / 0.837
4h12 SAHHistone-lysine N-methyltransferase SETD2 2.1.1.43 0.832
3swc SAHHistone-lysine N-methyltransferase EHMT1 / 0.831
5jin SAMHistone-lysine N-methyltransferase EHMT2 / 0.824
2rfi SAHHistone-lysine N-methyltransferase EHMT1 / 0.822
2o8j SAHHistone-lysine N-methyltransferase EHMT2 / 0.817
5jj0 SAMHistone-lysine N-methyltransferase EHMT2 / 0.813
4qen SAHHistone-lysine N-methyltransferase, H3 lysine-9 specific SUVH4 2.1.1.43 0.805
2igq SAHHistone-lysine N-methyltransferase EHMT1 / 0.801
3fpd SAHHistone-lysine N-methyltransferase EHMT1 / 0.786
3cbp SFGHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.782
4ypu SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.782
4j83 SAMHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.781
2h21 SAMRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.775
4z4p SAHHistone-lysine N-methyltransferase 2D 2.1.1.43 0.775
1ozv SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.771
3m53 SAHHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.770
5f59 SAHHistone-lysine N-methyltransferase 2C 2.1.1.43 0.770
5czy SAMEukaryotic huntingtin interacting protein B / 0.769
5hq8 SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.753
1p0y SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.752
3qwp SAMHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.752
2r3a SAMHistone-lysine N-methyltransferase SUV39H2 2.1.1.43 0.751
2h23 SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.750
2bqz SAHN-lysine methyltransferase KMT5A / 0.747
1mlv SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.734
3mo0 SAHHistone-lysine N-methyltransferase EHMT1 / 0.725
4au7 SAHHistone-lysine N-methyltransferase KMT5C 2.1.1.43 0.717
3ooi SAMHistone-lysine N-methyltransferase, H3 lysine-36 and H4 lysine-20 specific 2.1.1.43 0.712
3ru0 SFGHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.706
1n6c SAMHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.705
3pdn SFGHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.702
4ynp SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.698
2h2j SFGRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.697
3oxf SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.685
4o30 SAHProbable Histone-lysine N-methyltransferase ATXR5 2.1.1.43 0.683
3n71 SFGHistone-lysine N-methyltransferase Smyd1 / 0.681
4o6f SAHN-lysine methyltransferase SMYD2 / 0.681
5ex0 SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.673
5hyn SAHHistone-lysine N-methyltransferase EZH2 2.1.1.43 0.664
3s8p SAMHistone-lysine N-methyltransferase KMT5B 2.1.1.43 0.658