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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
5hq8 SAH Histone-lysine N-methyltransferase SMYD3 2.1.1.43

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5hq8 SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 1.039
3qwp SAMHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.983
3pdn SFGHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.940
3ru0 SFGHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.931
5ex0 SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.877
3oxf SAHHistone-lysine N-methyltransferase SMYD3 2.1.1.43 0.871
3tg4 SAMN-lysine methyltransferase SMYD2 / 0.870
4o6f SAHN-lysine methyltransferase SMYD2 / 0.836
3n71 SFGHistone-lysine N-methyltransferase Smyd1 / 0.801
4j83 SAMHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.795
4h12 SAHHistone-lysine N-methyltransferase SETD2 2.1.1.43 0.793
3m53 SAHHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.786
2h21 SAMRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.780
4o30 SAHProbable Histone-lysine N-methyltransferase ATXR5 2.1.1.43 0.777
5czy SAMEukaryotic huntingtin interacting protein B / 0.771
1n6c SAMHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.762
1ozv SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.757
3cbp SFGHistone-lysine N-methyltransferase SETD7 2.1.1.43 0.756
3rib SAHN-lysine methyltransferase SMYD2 / 0.754
3kmt SAHHistone H3K27 methylase / 0.753
3fpd SAHHistone-lysine N-methyltransferase EHMT1 / 0.751
2bqz SAHN-lysine methyltransferase KMT5A / 0.748
2rfi SAHHistone-lysine N-methyltransferase EHMT1 / 0.745
1mlv SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.742
2h23 SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.735
2igq SAHHistone-lysine N-methyltransferase EHMT1 / 0.734
2o8j SAHHistone-lysine N-methyltransferase EHMT2 / 0.730
3swc SAHHistone-lysine N-methyltransferase EHMT1 / 0.730
1p0y SAHRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.727
3hna SAHHistone-lysine N-methyltransferase EHMT1 / 0.723
2h2j SFGRibulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic 2.1.1.127 0.720
2r3a SAMHistone-lysine N-methyltransferase SUV39H2 2.1.1.43 0.700
4z4p SAHHistone-lysine N-methyltransferase 2D 2.1.1.43 0.692
4bup SAMHistone-lysine N-methyltransferase KMT5B 2.1.1.43 0.680
3s8p SAMHistone-lysine N-methyltransferase KMT5B 2.1.1.43 0.679
5hyn SAHHistone-lysine N-methyltransferase EZH2 2.1.1.43 0.671
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.668
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.666
4r1l ADPPhenylacetate-coenzyme A ligase / 0.664
1vhz APRADP compounds hydrolase NudE 3.6.1 0.660
4au7 SAHHistone-lysine N-methyltransferase KMT5C 2.1.1.43 0.660
5f59 SAHHistone-lysine N-methyltransferase 2C 2.1.1.43 0.659
5g53 NECAdenosine receptor A2a / 0.659
1v25 ANPLong-chain-fatty-acid--CoA ligase 6.2.1.3 0.658
3tw6 ADPPyruvate carboxylase / 0.653