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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
2xbm SAH Genome polyprotein

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2xbm SAHGenome polyprotein / 0.821
3p8z 36AGenome polyprotein 2.1.1.56 0.702
3lga SAHtRNA (adenine(57)-N(1)/adenine(58)-N(1))-methyltransferase TrmI 2.1.1.219 0.691
4uck SAMLarge structural protein / 0.689
3emd SFGMethyltransferase / 0.684
2p41 SAHGenome polyprotein / 0.681
3elu SAMMethyltransferase / 0.681
3evb SAHGenome polyprotein 2.1.1.56 0.680
3lkz SFGGenome polyprotein / 0.677
4k6m SAHGenome polyprotein / 0.676
1p1b SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.674
4ctj SAMGenome polyprotein / 0.674
4ctk SAMGenome polyprotein / 0.673
3eld SFGMethyltransferase / 0.671
2px5 SAHGenome polyprotein 2.7.7.48 0.668
2yvl SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.668
3p8z SAHGenome polyprotein 2.1.1.56 0.668
2px2 SAHGenome polyprotein 2.7.7.48 0.667
3eva SAHGenome polyprotein 2.1.1.56 0.665
3evc SAHGenome polyprotein 2.1.1.56 0.663
1i9g SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.662
3evg SAHGenome polyprotein 2.1.1.56 0.662
2plw SAMRibosomal RNA methyltransferase, putative / 0.661
3p97 SAMGenome polyprotein 2.1.1.56 0.660
2hnk SAHSAM-dependent O-methyltransferase / 0.659
5jjs SAHGenome polyprotein / 0.657
3c3y SAHO-methyltransferase / 0.656
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.654
1r6a SAHGenome polyprotein 2.7.7.48 0.652
5dto SAHGenome polyprotein / 0.652
2pxa SAHGenome polyprotein 2.7.7.48 0.651
3duw SAHO-methyltransferase, putative / 0.651
1zzq DP9Nitric oxide synthase, brain 1.14.13.39 0.650
1zzr DP9Nitric oxide synthase, brain 1.14.13.39 0.650
2wa2 SAMGenome polyprotein / 0.650