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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
3eva SAH Genome polyprotein 2.1.1.56

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3eva SAHGenome polyprotein 2.1.1.56 0.867
3p97 SAMGenome polyprotein 2.1.1.56 0.829
3evc SAHGenome polyprotein 2.1.1.56 0.823
3evb SAHGenome polyprotein 2.1.1.56 0.821
3p8z SAHGenome polyprotein 2.1.1.56 0.816
3eld SFGMethyltransferase / 0.807
4ctj SAMGenome polyprotein / 0.807
3emd SFGMethyltransferase / 0.791
2px5 SAHGenome polyprotein 2.7.7.48 0.787
2wa2 SAMGenome polyprotein / 0.787
4ctk SAMGenome polyprotein / 0.785
2px2 SAHGenome polyprotein 2.7.7.48 0.783
4k6m SAHGenome polyprotein / 0.781
3p8z 36AGenome polyprotein 2.1.1.56 0.777
3lkz SFGGenome polyprotein / 0.772
1l9k SAHGenome polyprotein 2.7.7.48 0.770
1r6a SAHGenome polyprotein 2.7.7.48 0.768
3elu SAMMethyltransferase / 0.766
5jjr SAHGenome polyprotein / 0.763
5dto SAHGenome polyprotein / 0.762
2p3q SAHGenome polyprotein / 0.760
3ely SAHMethyltransferase / 0.759
2p41 SAHGenome polyprotein / 0.744
3evg SAHGenome polyprotein 2.1.1.56 0.741
5jjs SAHGenome polyprotein / 0.741
2pwy SAHtRNA (adenine(58)-N(1))-methyltransferase TrmI 2.1.1.220 0.729
2pxa SAHGenome polyprotein 2.7.7.48 0.727
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.723
1i9g SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.720
3tos SAHCalS11 / 0.714
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.713
2p1d SAHGenome polyprotein 2.7.7.48 0.712
5k7u SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.708
2yvl SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.702
2g1p SAHDNA adenine methylase 2.1.1.72 0.693
1yf3 SAHDNA adenine methylase / 0.692
4gf5 SAHCalS11 / 0.690
4n48 SAMCap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1 2.1.1.57 0.690
4x7y SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.687
3c3y SAHO-methyltransferase / 0.683
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.682
5k7w SAHN6-adenosine-methyltransferase 70 kDa subunit / 0.679
2dpm SAMModification methylase DpnIIA 2.1.1.72 0.676
4xvy SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.675
3vyw SAMUncharacterized protein / 0.674
3lga SAHtRNA (adenine(57)-N(1)/adenine(58)-N(1))-methyltransferase TrmI 2.1.1.219 0.668
5il1 SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.667
2plw SAMRibosomal RNA methyltransferase, putative / 0.665
2xbm SAHGenome polyprotein / 0.665
2yxl SFG450aa long hypothetical fmu protein / 0.662
2i9k SAHModification methylase HhaI 2.1.1.37 0.658
4uck SAMLarge structural protein / 0.656
3pt9 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.655
4ymg SAMPutative SAM-dependent O-methyltranferase / 0.655
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.654
2oy0 SAHGenome polyprotein / 0.652
9mht SAHModification methylase HhaI 2.1.1.37 0.651
2c7q SAHModification methylase HhaI 2.1.1.37 0.650