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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
2bqz SAH N-lysine methyltransferase KMT5A

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2bqz SAHN-lysine methyltransferase KMT5A / 0.936
3swc SAHHistone-lysine N-methyltransferase EHMT1 / 0.797
3m53 SAHHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.787
1n6c SAMHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.782
3fpd SAHHistone-lysine N-methyltransferase EHMT1 / 0.777
4j83 SAMHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.770
4o6f SAHN-lysine methyltransferase SMYD2 / 0.765
2igq SAHHistone-lysine N-methyltransferase EHMT1 / 0.759
3hna SAHHistone-lysine N-methyltransferase EHMT1 / 0.757
2rfi SAHHistone-lysine N-methyltransferase EHMT1 / 0.752
4h12 SAHHistone-lysine N-methyltransferase SETD2 2.1.1.43 0.750
5hq8 SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.748
3kmt SAHHistone H3K27 methylase / 0.747
1ozv SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.743
5jhn SAMHistone-lysine N-methyltransferase EHMT2 / 0.738
5ex0 SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.737
5jin SAMHistone-lysine N-methyltransferase EHMT2 / 0.732
3ru0 SFGHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.730
4ypa SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.730
5jj0 SAMHistone-lysine N-methyltransferase EHMT2 / 0.730
2o8j SAHHistone-lysine N-methyltransferase EHMT2 / 0.729
3cbp SFGHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.726
5czy SAMEukaryotic huntingtin interacting protein B / 0.724
4o30 SAHProbable Histone-lysine N-methyltransferase ATXR5 2.1.1.43 0.722
2h21 SAMRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.715
4ynp SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.713
1mlv SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.711
4z4p SAHHistone-lysine N-methyltransferase 2D 2.1.1.43 0.711
2h23 SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.709
3oxf SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.708
3vuz K15Histone-lysine N-methyltransferase SETD7 2.1.1.43 0.708
3qwp SAMHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.707
3mo0 SAHHistone-lysine N-methyltransferase EHMT1 / 0.703
3ooi SAMHistone-lysine N-methyltransferase, H3 lysine-36 and H4 lysine-20 specific 2.1.1.43 0.695
1p0y SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.692
3pdn SFGHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.687
3vv0 KH3Histone-lysine N-methyltransferase SETD7 2.1.1.43 0.686
3tg4 SAMN-lysine methyltransferase SMYD2 / 0.672
4qen SAHHistone-lysine N-methyltransferase, H3 lysine-9 specific SUVH4 2.1.1.43 0.671
2h2j SFGRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.668
4au7 SAHHistone-lysine N-methyltransferase KMT5C 2.1.1.43 0.654
5f59 SAHHistone-lysine N-methyltransferase 2C 2.1.1.43 0.652
3rib SAHN-lysine methyltransferase SMYD2 / 0.650