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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
4g56 SAH Protein arginine N-methyltransferase 5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4g56 SAHProtein arginine N-methyltransferase 5 / 1.101
5fa5 MTAProtein arginine N-methyltransferase 5 / 0.751
3ua3 SAHProtein arginine N-methyltransferase 5 / 0.701
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.694
3lcc SAHThiocyanate methyltransferase 1 / 0.692
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.684
4gek GEKCarboxy-S-adenosyl-L-methionine synthase / 0.680
1nbi SAMGlycine N-methyltransferase 2.1.1.20 0.676
3mte SAM16S rRNA (adenine(1408)-N(1))-methyltransferase 2.1.1.180 0.674
2zzm SAMtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.673
3uj7 SAMPhosphoethanolamine N-methyltransferase / 0.673
1kia SAMGlycine N-methyltransferase 2.1.1.20 0.667
3lcv SAM16S rRNA (guanine(1405)-N(7))-methyltransferase 2.1.1.179 0.666
3qow SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.659
3wst SAHProtein arginine N-methyltransferase 7 2.1.1 0.659
2f8l SAMLmo1582 protein / 0.658
1nw3 SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.656
2zw9 SAMtRNA wybutosine-synthesizing protein 4 2.1.1.290 0.656
3ssm SAHMycinamicin VI 2''-O-methyltransferase / 0.656
4dcm SAMRibosomal RNA large subunit methyltransferase G 2.1.1.174 0.656
4iv8 SAMPhosphoethanolamine N-methyltransferase,putative / 0.655
4yuz S4MSpermidine synthase, putative / 0.655
4mwz SAMPhosphoethanolamine N-methyltransferase, putative / 0.652
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.652
4fgz SAHPhosphoethanolamine N-methyltransferase / 0.650
4qpp SAHProtein arginine N-methyltransferase 6 / 0.650