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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
5jhn SAM Histone-lysine N-methyltransferase EHMT2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5jhn SAMHistone-lysine N-methyltransferase EHMT2 / 1.049
5jj0 SAMHistone-lysine N-methyltransferase EHMT2 / 0.994
5jin SAMHistone-lysine N-methyltransferase EHMT2 / 0.991
4ypa SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.922
4ynm SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.890
4h12 SAHHistone-lysine N-methyltransferase SETD2 2.1.1.43 0.885
3hna SAHHistone-lysine N-methyltransferase EHMT1 / 0.878
2rfi SAHHistone-lysine N-methyltransferase EHMT1 / 0.877
2o8j SAHHistone-lysine N-methyltransferase EHMT2 / 0.872
4qen SAHHistone-lysine N-methyltransferase, H3 lysine-9 specific SUVH4 2.1.1.43 0.862
4ynp SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.849
3fpd SAHHistone-lysine N-methyltransferase EHMT1 / 0.846
3kmt SAHHistone H3K27 methylase / 0.844
3ooi SAMHistone-lysine N-methyltransferase, H3 lysine-36 and H4 lysine-20 specific 2.1.1.43 0.844
2igq SAHHistone-lysine N-methyltransferase EHMT1 / 0.835
2r3a SAMHistone-lysine N-methyltransferase SUV39H2 2.1.1.43 0.833
4ypu SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.818
3qwp SAMHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.808
5czy SAMEukaryotic huntingtin interacting protein B / 0.806
4j83 SAMHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.797
5f59 SAHHistone-lysine N-methyltransferase 2C 2.1.1.43 0.795
1n6c SAMHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.793
4o30 SAHProbable Histone-lysine N-methyltransferase ATXR5 2.1.1.43 0.788
3swc SAHHistone-lysine N-methyltransferase EHMT1 / 0.786
3tg4 SAMN-lysine methyltransferase SMYD2 / 0.786
4z4p SAHHistone-lysine N-methyltransferase 2D 2.1.1.43 0.782
2h21 SAMRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.780
1p0y SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.753
2h23 SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.753
4o6f SAHN-lysine methyltransferase SMYD2 / 0.742
3ru0 SFGHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.741
2bqz SAHN-lysine methyltransferase KMT5A / 0.738
1ozv SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.736
3m53 SAHHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.727
3s8p SAMHistone-lysine N-methyltransferase KMT5B 2.1.1.43 0.718
4bup SAMHistone-lysine N-methyltransferase KMT5B 2.1.1.43 0.713
3cbp SFGHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.707
1mlv SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.697
4au7 SAHHistone-lysine N-methyltransferase KMT5C 2.1.1.43 0.695
3n71 SFGHistone-lysine N-methyltransferase Smyd1 / 0.676
4ype SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.674
3oxf SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.672
2h2j SFGRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.661
2pca SAHDiphthine synthase / 0.659
2pcm SAHDiphthine synthase / 0.659
2ek4 SAHDiphthine synthase / 0.657
2ek7 SAHDiphthine synthase / 0.656
2e7r SAHDiphthine synthase / 0.654
2eka SAHDiphthine synthase / 0.654
2p5f SAHDiphthine synthase / 0.651
2z6r SAHDiphthine synthase / 0.650
5ex0 SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.650