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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
3p97 SAM Genome polyprotein 2.1.1.56

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3p97 SAMGenome polyprotein 2.1.1.56 0.892
3ely SAHMethyltransferase / 0.835
3eva SAHGenome polyprotein 2.1.1.56 0.829
3evc SAHGenome polyprotein 2.1.1.56 0.829
3eld SFGMethyltransferase / 0.823
2px5 SAHGenome polyprotein 2.7.7.48 0.819
4ctj SAMGenome polyprotein / 0.819
5jjr SAHGenome polyprotein / 0.818
3p8z SAHGenome polyprotein 2.1.1.56 0.815
2px2 SAHGenome polyprotein 2.7.7.48 0.814
3evb SAHGenome polyprotein 2.1.1.56 0.810
3lkz SFGGenome polyprotein / 0.810
3emd SFGMethyltransferase / 0.802
4k6m SAHGenome polyprotein / 0.789
4ctk SAMGenome polyprotein / 0.784
1l9k SAHGenome polyprotein 2.7.7.48 0.783
3elu SAMMethyltransferase / 0.772
5dto SAHGenome polyprotein / 0.770
3p8z 36AGenome polyprotein 2.1.1.56 0.761
1r6a SAHGenome polyprotein 2.7.7.48 0.760
2p41 SAHGenome polyprotein / 0.754
2p3q SAHGenome polyprotein / 0.753
5jjs SAHGenome polyprotein / 0.751
2wa2 SAMGenome polyprotein / 0.743
3evg SAHGenome polyprotein 2.1.1.56 0.742
2pxa SAHGenome polyprotein 2.7.7.48 0.738
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.733
2pwy SAHtRNA (adenine(58)-N(1))-methyltransferase TrmI 2.1.1.220 0.727
1i9g SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.721
2g1p SAHDNA adenine methylase 2.1.1.72 0.710
3tos SAHCalS11 / 0.709
5k7w SAHN6-adenosine-methyltransferase 70 kDa subunit / 0.708
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.707
1yf3 SAHDNA adenine methylase / 0.707
2oy0 SAHGenome polyprotein / 0.705
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.703
4n48 SAMCap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1 2.1.1.57 0.702
4x7y SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.695
4xvy SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.692
2yvl SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.688
3c3y SAHO-methyltransferase / 0.687
5il1 SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.683
2p1d SAHGenome polyprotein 2.7.7.48 0.682
5k7u SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.682
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.679
4gf5 SAHCalS11 / 0.678
3vyw SAMUncharacterized protein / 0.675
3tm5 SFGUncharacterized protein / 0.664
3pt9 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.661
2xbm SAHGenome polyprotein / 0.660
2yxl SFG450aa long hypothetical fmu protein / 0.660
3orh SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.660
2okc SAMProbable type I restriction enzyme BthVORF4518P M protein 2.1.1.72 0.659
2dpm SAMModification methylase DpnIIA 2.1.1.72 0.658
1skm SAHModification methylase HhaI 2.1.1.37 0.657
2hnk SAHSAM-dependent O-methyltransferase / 0.656
5il2 SAHN6-adenosine-methyltransferase 70 kDa subunit / 0.656
2plw SAMRibosomal RNA methyltransferase, putative / 0.654
2i9k SAHModification methylase HhaI 2.1.1.37 0.652
1boo SAHModification methylase PvuII 2.1.1.113 0.651