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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
3eld SFG Methyltransferase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3eld SFGMethyltransferase / 0.899
3p97 SAMGenome polyprotein 2.1.1.56 0.823
3ely SAHMethyltransferase / 0.811
3p8z SAHGenome polyprotein 2.1.1.56 0.811
3eva SAHGenome polyprotein 2.1.1.56 0.807
3evc SAHGenome polyprotein 2.1.1.56 0.807
4ctk SAMGenome polyprotein / 0.807
2px2 SAHGenome polyprotein 2.7.7.48 0.792
5jjr SAHGenome polyprotein / 0.791
3evb SAHGenome polyprotein 2.1.1.56 0.789
3emd SFGMethyltransferase / 0.788
4ctj SAMGenome polyprotein / 0.787
5dto SAHGenome polyprotein / 0.778
2p41 SAHGenome polyprotein / 0.770
2px5 SAHGenome polyprotein 2.7.7.48 0.770
3elu SAMMethyltransferase / 0.764
4k6m SAHGenome polyprotein / 0.764
2wa2 SAMGenome polyprotein / 0.763
3p8z 36AGenome polyprotein 2.1.1.56 0.761
3lkz SFGGenome polyprotein / 0.758
1r6a SAHGenome polyprotein 2.7.7.48 0.754
2pxa SAHGenome polyprotein 2.7.7.48 0.739
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.736
5k7w SAHN6-adenosine-methyltransferase 70 kDa subunit / 0.724
2p3q SAHGenome polyprotein / 0.718
2p1d SAHGenome polyprotein 2.7.7.48 0.709
1l9k SAHGenome polyprotein 2.7.7.48 0.705
5jjs SAHGenome polyprotein / 0.700
1yf3 SAHDNA adenine methylase / 0.693
1i9g SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.692
2yxl SFG450aa long hypothetical fmu protein / 0.690
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.689
2g1p SAHDNA adenine methylase 2.1.1.72 0.689
2plw SAMRibosomal RNA methyltransferase, putative / 0.688
4gf5 SAHCalS11 / 0.687
2yvl SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.684
4x7y SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.682
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.682
5k7u SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.681
5il1 SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.676
3tos SAHCalS11 / 0.675
2xbm SAHGenome polyprotein / 0.671
3c3y SAHO-methyltransferase / 0.669
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.669
1skm SAHModification methylase HhaI 2.1.1.37 0.666
2oy0 SAHGenome polyprotein / 0.666
2pwy SAHtRNA (adenine(58)-N(1))-methyltransferase TrmI 2.1.1.220 0.666
1nw5 SAMModification methylase RsrI 2.1.1.72 0.665
3lga SAHtRNA (adenine(57)-N(1)/adenine(58)-N(1))-methyltransferase TrmI 2.1.1.219 0.663
2yx1 SFGtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.662
4c04 SFGProtein arginine N-methyltransferase 6 / 0.659
4xvy SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.659
3orh SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.658
4uck SAMLarge structural protein / 0.657
2dpm SAMModification methylase DpnIIA 2.1.1.72 0.656
4rtj SFGDNA adenine methylase 2.1.1.72 0.656
1boo SAHModification methylase PvuII 2.1.1.113 0.654
2c7q SAHModification methylase HhaI 2.1.1.37 0.653
3mht SAHModification methylase HhaI 2.1.1.37 0.653
4c03 SFGProtein arginine N-methyltransferase 6 / 0.653
10mh SAHModification methylase HhaI 2.1.1.37 0.652
3vyw SAMUncharacterized protein / 0.652
5dx1 SFGHistone-arginine methyltransferase CARM1 / 0.650