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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
2bm9 SAM Cephalosporin hydroxylase CmcI

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2bm9 SAMCephalosporin hydroxylase CmcI / 1.096
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.721
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.715
3c3y SAHO-methyltransferase / 0.697
2br5 SAHCephalosporin hydroxylase CmcI / 0.696
4xvy SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.696
3cbg SAHO-methyltransferase / 0.689
1nbh SAMGlycine N-methyltransferase 2.1.1.20 0.685
3sso SAHMycinamicin VI 2''-O-methyltransferase / 0.685
3ssm SAHMycinamicin VI 2''-O-methyltransferase / 0.684
4gf5 SAHCalS11 / 0.684
4x7y SAHMycinamicin III 3''-O-methyltransferase 2.1.1.237 0.684
2plw SAMRibosomal RNA methyltransferase, putative / 0.683
2uyh SAHModification methylase HhaI 2.1.1.37 0.680
3duw SAHO-methyltransferase, putative / 0.678
4dkj SAHCytosine-specific methyltransferase / 0.678
3tr6 SAHO-methyltransferase / 0.677
4ymg SAMPutative SAM-dependent O-methyltranferase / 0.672
1bc5 SAHChemotaxis protein methyltransferase 2.1.1.80 0.671
2cww SAHUncharacterized protein / 0.671
3tos SAHCalS11 / 0.670
3vyw SAMUncharacterized protein / 0.670
4dmg SAMUncharacterized protein / 0.666
4oa5 SAHO-methyltransferase family protein / 0.665
1kia SAMGlycine N-methyltransferase 2.1.1.20 0.664
2zcj SAHModification methylase HhaI 2.1.1.37 0.664
4pyn SAHCatechol O-methyltransferase 2.1.1.6 0.664
2i9k SAHModification methylase HhaI 2.1.1.37 0.663
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.663
3grr SAHProbable ribosomal RNA small subunit methyltransferase A / 0.663
1ptj SNDNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.662
3eey SAMrRNA methylase / 0.662
2yy7 NADL-threonine dehydrogenase / 0.661
1rjg SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.659
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.659
5fa5 MTAProtein arginine N-methyltransferase 5 / 0.658
2zth SAMCatechol O-methyltransferase 2.1.1.6 0.656
3evb SAHGenome polyprotein 2.1.1.56 0.656
3fri SAH16S rRNA methylase / 0.653
3lcc SAHThiocyanate methyltransferase 1 / 0.653
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.651
1nw5 SAMModification methylase RsrI 2.1.1.72 0.651
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.651
2bzg SAHThiopurine S-methyltransferase 2.1.1.67 0.650
3dmg SAHProbable ribosomal RNA small subunit methyltransferase / 0.650
3mte SAM16S rRNA (adenine(1408)-N(1))-methyltransferase 2.1.1.180 0.650