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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
2pwySAHtRNA (adenine(58)-N(1))-methyltransferase TrmI2.1.1.220

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2pwySAHtRNA (adenine(58)-N(1))-methyltransferase TrmI2.1.1.2201.000
1i9gSAMtRNA (adenine(58)-N(1))-methyltransferase TrmI/0.510
4c04SFGProtein arginine N-methyltransferase 6/0.497
1eg2MTAModification methylase RsrI2.1.1.720.474
3friSAH16S rRNA methylase/0.474
2yvlSAMtRNA (adenine(58)-N(1))-methyltransferase TrmI/0.471
2plwSAMRibosomal RNA methyltransferase, putative/0.461
3uj7SAMPhosphoethanolamine N-methyltransferase/0.460
4fsuHK5Serine/threonine-protein kinase Chk12.7.11.10.459
4pyoSAHCatechol O-methyltransferase2.1.1.60.456
2r0uM54Serine/threonine-protein kinase Chk12.7.11.10.454
3tljSAHUncharacterized protein/0.454
4xxvNAD3-isopropylmalate dehydrogenase/0.454
3cinNADMyo-inositol-1-phosphate synthase-related protein/0.453
4blwSAHRibosomal RNA large subunit methyltransferase J/0.450
3b895GP16S rRNA methylase/0.448
3p8z36AGenome polyprotein2.1.1.560.448
4oa5SAHO-methyltransferase family protein/0.448
2yimMC4Probable alpha-methylacyl-CoA racemase Mcr (2-methylacyl-CoA racemase) (2-arylpropionyl-CoA epimerase )/0.447
4iv0SAMPhosphoethanolamine N-methyltransferase, putative/0.447
2gd2CAAProbable alpha-methylacyl-CoA racemase Mcr (2-methylacyl-CoA racemase) (2-arylpropionyl-CoA epimerase )/0.446
3duwSAHO-methyltransferase, putative/0.446
3mteSAM16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.446
3b3fSAHHistone-arginine methyltransferase CARM1/0.445
2hxl422Serine/threonine-protein kinase Chk12.7.11.10.444
3ua3SAHProtein arginine N-methyltransferase 5/0.443
4qppSAHProtein arginine N-methyltransferase 6/0.443
1booSAHModification methylase PvuII2.1.1.1130.442
3pt9SAHDNA (cytosine-5)-methyltransferase 12.1.1.370.442
4obwSAM2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial/0.442
1h2bNAJNAD-dependent alcohol dehydrogenase/0.441
2w06FRVCyclin-dependent kinase 22.7.11.220.441
3lgaSAHtRNA (adenine(57)-N(1)/adenine(58)-N(1))-methyltransferase TrmI2.1.1.2190.441
5je4SAHMethyl transferase/0.441
1nw5SAMModification methylase RsrI2.1.1.720.440
4y93746Tyrosine-protein kinase/0.440