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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
2pxa SAH Genome polyprotein 2.7.7.48

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2pxa SAHGenome polyprotein 2.7.7.48 0.839
3emd SFGMethyltransferase / 0.803
2px2 SAHGenome polyprotein 2.7.7.48 0.785
4k6m SAHGenome polyprotein / 0.776
3evb SAHGenome polyprotein 2.1.1.56 0.775
3p8z SAHGenome polyprotein 2.1.1.56 0.766
4ctk SAMGenome polyprotein / 0.761
4ctj SAMGenome polyprotein / 0.758
3ely SAHMethyltransferase / 0.756
2px5 SAHGenome polyprotein 2.7.7.48 0.753
1r6a SAHGenome polyprotein 2.7.7.48 0.748
3evc SAHGenome polyprotein 2.1.1.56 0.743
3elu SAMMethyltransferase / 0.741
3eld SFGMethyltransferase / 0.739
1nw5 SAMModification methylase RsrI 2.1.1.72 0.738
3p97 SAMGenome polyprotein 2.1.1.56 0.738
4n48 SAMCap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1 2.1.1.57 0.736
2p41 SAHGenome polyprotein / 0.735
2p3q SAHGenome polyprotein / 0.734
3lkz SFGGenome polyprotein / 0.734
5jjr SAHGenome polyprotein / 0.734
3c3y SAHO-methyltransferase / 0.731
3p8z 36AGenome polyprotein 2.1.1.56 0.731
3eva SAHGenome polyprotein 2.1.1.56 0.727
1l9k SAHGenome polyprotein 2.7.7.48 0.719
2wa2 SAMGenome polyprotein / 0.718
2p1d SAHGenome polyprotein 2.7.7.48 0.714
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.707
5jjs SAHGenome polyprotein / 0.702
3evg SAHGenome polyprotein 2.1.1.56 0.701
4krh SAMPhosphoethanolamine N-methyltransferase 2 / 0.698
9mht SAHModification methylase HhaI 2.1.1.37 0.698
4gf5 SAHCalS11 / 0.689
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.687
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.684
5dto SAHGenome polyprotein / 0.683
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.682
7mht SAHModification methylase HhaI 2.1.1.37 0.677
2oy0 SAHGenome polyprotein / 0.673
1i9g SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.671
2g1p SAHDNA adenine methylase 2.1.1.72 0.670
10mh SAHModification methylase HhaI 2.1.1.37 0.669
2dpm SAMModification methylase DpnIIA 2.1.1.72 0.668
2plw SAMRibosomal RNA methyltransferase, putative / 0.668
5il2 SAHN6-adenosine-methyltransferase 70 kDa subunit / 0.668
2okc SAMProbable type I restriction enzyme BthVORF4518P M protein 2.1.1.72 0.665
5k7u SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.664
3a26 MTAtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.663
4rtl SFGDNA adenine methylase 2.1.1.72 0.663
3cbg SAHO-methyltransferase / 0.662
1mht SAHModification methylase HhaI 2.1.1.37 0.661
4iyg 1HUStrictosidine synthase 4.3.3.2 0.658
1skm SAHModification methylase HhaI 2.1.1.37 0.657
2pwy SAHtRNA (adenine(58)-N(1))-methyltransferase TrmI 2.1.1.220 0.657
4x7y SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.657
4o29 SAHProtein-L-isoaspartate O-methyltransferase / 0.656
5mht SAHModification methylase HhaI 2.1.1.37 0.656
1p1b SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.654
2yvl SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.654
3qv2 SAH5-cytosine DNA methyltransferase / 0.654
5e8j SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.654
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.654
5k7w SAHN6-adenosine-methyltransferase 70 kDa subunit / 0.654
4uck SAMLarge structural protein / 0.652
2p35 SAHTrans-aconitate 2-methyltransferase / 0.651
2xbm SAHGenome polyprotein / 0.651
2c7q SAHModification methylase HhaI 2.1.1.37 0.650