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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
3p2kSAM16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.180

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3p2kSAM16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1801.000
3mteSAM16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.623
3p2eSAH16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.564
3pb3SAH16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.527
5dp2NAPCurF/0.461
5bw4SAMUncharacterized protein/0.460
4bfxZVXPantothenate kinase2.7.1.330.458
3ha7B32Hydroxymycolate synthase MmaA42.1.10.457
1z7yAA5Cysteine synthase 12.5.1.470.455
2iko7IGRenin3.4.23.150.454
3ha3SAHHydroxymycolate synthase MmaA42.1.10.453
3ha5SFGHydroxymycolate synthase MmaA42.1.10.452
5fm7ADPRuvB-like helicase/0.452
2r2mI50Prothrombin3.4.21.50.451
3qlsNDPDihydrofolate reductase1.5.1.30.451
4bftZVTPantothenate kinase2.7.1.330.447
4obwSAM2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial/0.443
3v0p4GWHisto-blood group ABO system transferase/0.442
4gxs0YSGlutamate receptor 2/0.442
3c1kT15Prothrombin3.4.21.50.441
1ypeUIPProthrombin3.4.21.50.440