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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
1x1c SAH C-20 methyltransferase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1x1c SAHC-20 methyltransferase / 1.044
1x1b SAHC-20 methyltransferase / 0.946
1x1a SAMC-20 methyltransferase / 0.939
1x1d SAHC-20 methyltransferase / 0.904
1f3l SAHProtein arginine N-methyltransferase 3 / 0.703
3iei SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.696
5je3 SAHMethyl transferase / 0.693
3p9k SAHCaffeic acid O-methyltransferase / 0.692
2h00 SAHU6 small nuclear RNA (adenine-(43)-N(6))-methyltransferase / 0.688
2yqz SAMUncharacterized protein / 0.688
4lwp SAHArginine N-methyltransferase, putative / 0.688
3p9c SAHCaffeic acid O-methyltransferase / 0.682
1qan SAHrRNA adenine N-6-methyltransferase 2.1.1.184 0.681
4qpp SAHProtein arginine N-methyltransferase 6 / 0.680
3b3f SAHHistone-arginine methyltransferase CARM1 / 0.674
3ldg SAHUncharacterized protein / 0.673
4fp9 SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.673
4hc4 SAHProtein arginine N-methyltransferase 6 / 0.673
4hh4 SAHCcbJ / 0.673
3reo SAH(Iso)eugenol O-methyltransferase 2.1.1.146 0.671
3bus SAHDemethylrebeccamycin-D-glucose O-methyltransferase / 0.668
2v74 SAHHistone-arginine methyltransferase CARM1 / 0.667
2qe6 SAMUncharacterized protein / 0.663
5bp9 SAHPutative methyltransferase protein / 0.663
3dlc SAMSAM (And some other nucleotide) binding motif:Generic methyltransferase / 0.662
3sso SAHMycinamicin VI 2''-O-methyltransferase / 0.662
3axt SAMtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase / 0.660
5je2 SAHMethyl transferase / 0.660
2bzg SAHThiopurine S-methyltransferase 2.1.1.67 0.658
4kdr SAHUbiquinone biosynthesis O-methyltransferase / 0.658
1fpq SAMIsoliquiritigenin 2'-O-methyltransferase / 0.657
1nbh SAMGlycine N-methyltransferase 2.1.1.20 0.657
4qnu GEKtRNA U34 carboxymethyltransferase / 0.657
5jdz SAHMethyl transferase / 0.656
2o07 MTASpermidine synthase 2.5.1.16 0.655
4azw SAMO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.655
4pgh SAMCaffeic acid O-methyltransferase / 0.655
5e72 SAMN2, N2-dimethylguanosine tRNA methyltransferase / 0.654
1qao SAMrRNA adenine N-6-methyltransferase 2.1.1.184 0.653
1ri4 SAMmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.652
4pne SAHMethyltransferase-like protein / 0.652
2yx1 SFGtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.651
4gek GEKCarboxy-S-adenosyl-L-methionine synthase / 0.651