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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
1nv8 SAM Release factor glutamine methyltransferase 2.1.1.297

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1nv8 SAMRelease factor glutamine methyltransferase 2.1.1.297 0.911
2nxe SAMRibosomal protein L11 methyltransferase 2.1.1 0.741
1nv9 SAHRelease factor glutamine methyltransferase 2.1.1.297 0.727
3b3f SAHHistone-arginine methyltransferase CARM1 / 0.721
3cjt SAHRibosomal protein L11 methyltransferase 2.1.1 0.715
2y1x SAHHistone-arginine methyltransferase CARM1 / 0.709
3egv SAHRibosomal protein L11 methyltransferase 2.1.1 0.703
1vq1 SAMRelease factor glutamine methyltransferase 2.1.1.297 0.696
3cjq SAHRibosomal protein L11 methyltransferase 2.1.1 0.696
4dcm SAMRibosomal RNA large subunit methyltransferase G 2.1.1.174 0.696
1sg9 SAMRelease factor glutamine methyltransferase 2.1.1.297 0.693
4hc4 SAHProtein arginine N-methyltransferase 6 / 0.691
1f3l SAHProtein arginine N-methyltransferase 3 / 0.690
5je2 SAHMethyl transferase / 0.686
2ytz SAHtRNA (guanine(26)-N(2))-dimethyltransferase / 0.685
5dwq SFGHistone-arginine methyltransferase CARM1 / 0.685
4e2x SAHMethyltransferase / 0.682
4qdk SAHMagnesium-protoporphyrin O-methyltransferase 2.1.1.11 0.682
4c03 SFGProtein arginine N-methyltransferase 6 / 0.681
3go4 SAHUncharacterized protein / 0.680
4c04 SFGProtein arginine N-methyltransferase 6 / 0.680
4qpp SAHProtein arginine N-methyltransferase 6 / 0.680
5dxj SFGHistone-arginine methyltransferase CARM1 / 0.680
5fa8 SAMRibosomal protein L11 methyltransferase, putative / 0.680
2yqz SAMUncharacterized protein / 0.679
5bxy SAHPutative RNA methylase family UPF0020 / 0.679
2v74 SAHHistone-arginine methyltransferase CARM1 / 0.673
5dx1 SFGHistone-arginine methyltransferase CARM1 / 0.673
3bgi SAHThiopurine S-methyltransferase 2.1.1.67 0.671
3dlc SAMSAM (And some other nucleotide) binding motif:Generic methyltransferase / 0.670
4kvz SAHPtnL protein / 0.669
2zul SAMProbable ribosomal RNA small subunit methyltransferase / 0.668
3ou2 SAHSAM-dependent methyltransferase / 0.668
5dxa SFGHistone-arginine methyltransferase CARM1 / 0.666
3lcu SAH16S rRNA (guanine(1405)-N(7))-methyltransferase 2.1.1.179 0.665
3pb3 SAH16S rRNA (adenine(1408)-N(1))-methyltransferase 2.1.1.180 0.665
3iei SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.664
4gek GEKCarboxy-S-adenosyl-L-methionine synthase / 0.664
4iv0 SAMPhosphoethanolamine N-methyltransferase, putative / 0.664
5bp9 SAHPutative methyltransferase protein / 0.664
3lcc SAHThiocyanate methyltransferase 1 / 0.663
1rjd SAMLeucine carboxyl methyltransferase 1 2.1.1.233 0.662
5dx8 SFGHistone-arginine methyltransferase CARM1 / 0.661
2vdv SAMtRNA (guanine-N(7)-)-methyltransferase / 0.660
3t7s SAMUncharacterized protein / 0.660
1qan SAHrRNA adenine N-6-methyltransferase 2.1.1.184 0.656
2zwv SAHProbable ribosomal RNA small subunit methyltransferase / 0.656
3lcv SAM16S rRNA (guanine(1405)-N(7))-methyltransferase 2.1.1.179 0.656
2h00 SAHU6 small nuclear RNA (adenine-(43)-N(6))-methyltransferase / 0.655
3wst SAHProtein arginine N-methyltransferase 7 2.1.1 0.655
1qaq SFGrRNA adenine N-6-methyltransferase 2.1.1.184 0.654
3lst SAHCalO1 / 0.653
4lwp SAHArginine N-methyltransferase, putative / 0.653
4mwz SAMPhosphoethanolamine N-methyltransferase, putative / 0.653
3v97 SAHRibosomal RNA large subunit methyltransferase K/L 2.1.1.173 0.650
4iwn GEKCarboxy-S-adenosyl-L-methionine synthase / 0.650
4nec SAHPutative SAM-dependent methyltransferase / 0.650