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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
5bw4SAMUncharacterized protein

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
5bw4SAMUncharacterized protein/1.000
5d1nSAHUncharacterized protein/0.536
5epeSAHUncharacterized protein/0.469
3p2kSAM16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.466
3pb3SAH16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.463
4iv0SAMPhosphoethanolamine N-methyltransferase, putative/0.463
3uj7SAMPhosphoethanolamine N-methyltransferase/0.462
4mwzSAMPhosphoethanolamine N-methyltransferase, putative/0.460
3cid318Beta-secretase 13.4.23.460.456
3mteSAM16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.456
4fgzSAHPhosphoethanolamine N-methyltransferase/0.454
1vbmYSATyrosine--tRNA ligase6.1.1.10.453
4i5cC5ITyrosine-protein kinase JAK1/0.451
3lpiZ74Beta-secretase 13.4.23.460.447
5bxySAHPutative RNA methylase family UPF0020/0.445
3reoSAH(Iso)eugenol O-methyltransferase2.1.1.1460.444
3grrSAHProbable ribosomal RNA small subunit methyltransferase A/0.443
3lpkZ76Beta-secretase 13.4.23.460.443
3cic316Beta-secretase 13.4.23.460.442
3k5c0BIBeta-secretase 13.4.23.460.442
1gotGDPGuanine nucleotide-binding protein G(t) subunit alpha-1/0.441
5e8jSAHmRNA cap guanine-N7 methyltransferase2.1.1.560.441