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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
2p3q SAH Genome polyprotein

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2p3q SAHGenome polyprotein / 0.843
4k6m SAHGenome polyprotein / 0.791
2px2 SAHGenome polyprotein 2.7.7.48 0.765
3emd SFGMethyltransferase / 0.763
3eva SAHGenome polyprotein 2.1.1.56 0.760
3ely SAHMethyltransferase / 0.758
3p97 SAMGenome polyprotein 2.1.1.56 0.753
1r6a SAHGenome polyprotein 2.7.7.48 0.749
3p8z SAHGenome polyprotein 2.1.1.56 0.742
4ctk SAMGenome polyprotein / 0.736
2p41 SAHGenome polyprotein / 0.735
3evb SAHGenome polyprotein 2.1.1.56 0.735
2pxa SAHGenome polyprotein 2.7.7.48 0.734
2p1d SAHGenome polyprotein 2.7.7.48 0.732
4ctj SAMGenome polyprotein / 0.731
5jjr SAHGenome polyprotein / 0.728
2px5 SAHGenome polyprotein 2.7.7.48 0.726
3evc SAHGenome polyprotein 2.1.1.56 0.726
3evg SAHGenome polyprotein 2.1.1.56 0.723
5dto SAHGenome polyprotein / 0.720
2wa2 SAMGenome polyprotein / 0.718
3eld SFGMethyltransferase / 0.718
5k7u SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.713
5il2 SAHN6-adenosine-methyltransferase 70 kDa subunit / 0.712
4n48 SAMCap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1 2.1.1.57 0.711
3lkz SFGGenome polyprotein / 0.710
1l9k SAHGenome polyprotein 2.7.7.48 0.701
5k7w SAHN6-adenosine-methyltransferase 70 kDa subunit / 0.699
3elu SAMMethyltransferase / 0.698
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.689
5jjs SAHGenome polyprotein / 0.675
1i9g SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.669
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.669
5il1 SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.668
1zzr DP9Nitric oxide synthase, brain 1.14.13.39 0.661
1zzq DP9Nitric oxide synthase, brain 1.14.13.39 0.660
3p8z 36AGenome polyprotein 2.1.1.56 0.660
4uck SAMLarge structural protein / 0.660
4xvy SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.658
3pt9 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.655
1yf3 SAHDNA adenine methylase / 0.654
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.654
2yvl SAMtRNA (adenine(58)-N(1))-methyltransferase TrmI / 0.654
10mh SAHModification methylase HhaI 2.1.1.37 0.653
2pwy SAHtRNA (adenine(58)-N(1))-methyltransferase TrmI 2.1.1.220 0.653