sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
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
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 5bw4 | SAM | Uncharacterized protein |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 5bw4 | SAM | Uncharacterized protein | / | 1.000 | |
| 5d1n | SAH | Uncharacterized protein | / | 0.536 | |
| 3pb3 | SAH | 16S rRNA (adenine(1408)-N(1))-methyltransferase | 2.1.1.180 | 0.483 | |
| 3p2k | SAM | 16S rRNA (adenine(1408)-N(1))-methyltransferase | 2.1.1.180 | 0.474 | |
| 1jqd | SAH | Histamine N-methyltransferase | 2.1.1.8 | 0.469 | |
| 5epe | SAH | Uncharacterized protein | / | 0.469 | |
| 3uj7 | SAM | Phosphoethanolamine N-methyltransferase | / | 0.466 | |
| 4iv0 | SAM | Phosphoethanolamine N-methyltransferase, putative | / | 0.463 | |
| 2aot | SAH | Histamine N-methyltransferase | 2.1.1.8 | 0.461 | |
| 1vbm | YSA | Tyrosine--tRNA ligase | 6.1.1.1 | 0.460 | |
| 4mwz | SAM | Phosphoethanolamine N-methyltransferase, putative | / | 0.460 | |
| 3cid | 318 | Beta-secretase 1 | 3.4.23.46 | 0.458 | |
| 3mte | SAM | 16S rRNA (adenine(1408)-N(1))-methyltransferase | 2.1.1.180 | 0.457 | |
| 4iv8 | SAM | Phosphoethanolamine N-methyltransferase,putative | / | 0.456 | |
| 1ve3 | SAM | Uncharacterized protein | / | 0.455 | |
| 4fgz | SAH | Phosphoethanolamine N-methyltransferase | / | 0.455 | |
| 3p2e | SAH | 16S rRNA (adenine(1408)-N(1))-methyltransferase | 2.1.1.180 | 0.454 | |
| 3ha3 | SAH | Hydroxymycolate synthase MmaA4 | 2.1.1 | 0.449 | |
| 5e8j | SAH | mRNA cap guanine-N7 methyltransferase | 2.1.1.56 | 0.449 | |
| 3lpi | Z74 | Beta-secretase 1 | 3.4.23.46 | 0.448 | |
| 3k5c | 0BI | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 3lpk | Z76 | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 3reo | SAH | (Iso)eugenol O-methyltransferase | 2.1.1.146 | 0.445 | |
| 5bxy | SAH | Putative RNA methylase family UPF0020 | / | 0.445 | |
| 3cic | 316 | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 3uj8 | SFG | Phosphoethanolamine N-methyltransferase | / | 0.444 | |
| 3grr | SAH | Probable ribosomal RNA small subunit methyltransferase A | / | 0.443 | |
| 4obw | SAM | 2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial | / | 0.443 | |
| 1got | GDP | Guanine nucleotide-binding protein G(t) subunit alpha-1 | / | 0.440 | |
| 2fgj | ATP | Alpha-hemolysin translocation ATP-binding protein HlyB | / | 0.440 |