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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
3tg4 SAM N-lysine methyltransferase SMYD2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3tg4 SAMN-lysine methyltransferase SMYD2 / 1.147
4o6f SAHN-lysine methyltransferase SMYD2 / 0.973
3qwp SAMHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.903
3pdn SFGHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.873
5hq8 SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.870
4j83 SAMHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.855
3ru0 SFGHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.854
2h21 SAMRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.847
4ypa SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.833
5ex0 SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.818
3oxf SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.815
5jj0 SAMHistone-lysine N-methyltransferase EHMT2 / 0.801
3rib SAHN-lysine methyltransferase SMYD2 / 0.793
3m53 SAHHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.787
5jhn SAMHistone-lysine N-methyltransferase EHMT2 / 0.786
4ype SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.778
2r3a SAMHistone-lysine N-methyltransferase SUV39H2 2.1.1.43 0.776
1n6c SAMHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.775
3cbp SFGHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.775
5jin SAMHistone-lysine N-methyltransferase EHMT2 / 0.771
4h12 SAHHistone-lysine N-methyltransferase SETD2 2.1.1.43 0.770
3ooi SAMHistone-lysine N-methyltransferase, H3 lysine-36 and H4 lysine-20 specific 2.1.1.43 0.767
4o30 SAHProbable Histone-lysine N-methyltransferase ATXR5 2.1.1.43 0.766
1p0y SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.758
1mlv SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.754
3n71 SFGHistone-lysine N-methyltransferase Smyd1 / 0.743
4qen SAHHistone-lysine N-methyltransferase, H3 lysine-9 specific SUVH4 2.1.1.43 0.737
1ozv SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.726
4ynp SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.716
2h2j SFGRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.700
3s8p SAMHistone-lysine N-methyltransferase KMT5B 2.1.1.43 0.681
2bqz SAHN-lysine methyltransferase KMT5A / 0.672
3vv0 KH3Histone-lysine N-methyltransferase SETD7 2.1.1.43 0.668
3fvu IACKynurenine--oxoglutarate transaminase 1 2.6.1.7 0.664
4bup SAMHistone-lysine N-methyltransferase KMT5B 2.1.1.43 0.661
4au7 SAHHistone-lysine N-methyltransferase KMT5C 2.1.1.43 0.659
4ynm SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.655
3lnc 5GPGuanylate kinase / 0.654