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 |
|---|---|---|---|
| 4tx9 | AMZ | Phosphoribosyl isomerase A |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4tx9 | AMZ | Phosphoribosyl isomerase A | / | 1.000 | |
| 2y88 | 2ER | Phosphoribosyl isomerase A | 5.3.1.16 | 0.621 | |
| 5dn1 | AMZ | Phosphoribosyl isomerase A | 5.3.1.16 | 0.613 | |
| 2cmo | M1L | Glutamate receptor 2 | / | 0.472 | |
| 3sqw | ANP | ATP-dependent RNA helicase MSS116, mitochondrial | 3.6.4.13 | 0.470 | |
| 2qs4 | LY5 | Glutamate receptor ionotropic, kainate 1 | / | 0.467 | |
| 1cde | GAR | Phosphoribosylglycinamide formyltransferase | / | 0.465 | |
| 2oc4 | IMH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.461 | |
| 1cqp | 803 | Integrin alpha-L | / | 0.456 | |
| 2nnq | T4B | Fatty acid-binding protein, adipocyte | / | 0.456 | |
| 3pdq | KC6 | Lysine-specific demethylase 4A | 1.14.11 | 0.454 | |
| 2y85 | 137 | Phosphoribosyl isomerase A | 5.3.1.16 | 0.453 | |
| 3v2u | ATP | Protein GAL3 | / | 0.453 | |
| 2yyi | FAD | 4-hydroxyphenylacetate 3-monooxygenase oxygenase component | 1.14.14.9 | 0.451 | |
| 3cgt | BCD | Cyclomaltodextrin glucanotransferase | 2.4.1.19 | 0.451 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.450 | |
| 2yyl | FAD | 4-hydroxyphenylacetate 3-monooxygenase oxygenase component | 1.14.14.9 | 0.450 | |
| 3zkp | ERB | Erythromycin C-12 hydroxylase | 1.14.13.154 | 0.450 | |
| 1bim | 0QB | Renin | 3.4.23.15 | 0.447 | |
| 1me6 | IVS | Plasmepsin-2 | 3.4.23.39 | 0.447 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.447 | |
| 3bi6 | 396 | Wee1-like protein kinase | 2.7.10.2 | 0.447 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.446 | |
| 2in6 | 839 | Wee1-like protein kinase | 2.7.10.2 | 0.446 | |
| 3h3r | 14H | Collagen type IV alpha-3-binding protein | / | 0.446 | |
| 4rvf | TYD | D-mycarose 3-C-methyltransferase | / | 0.446 | |
| 4djh | JDC | Kappa-type opioid receptor | / | 0.446 | |
| 1soj | IBM | cGMP-inhibited 3',5'-cyclic phosphodiesterase B | 3.1.4.17 | 0.445 | |
| 2a9z | 26A | Adenosine kinase | 2.7.1.20 | 0.445 | |
| 2pul | ACP | Methylthioribose kinase | 2.7.1.100 | 0.445 | |
| 3ivc | FG4 | Pantothenate synthetase | 6.3.2.1 | 0.445 | |
| 3l0l | HC3 | Nuclear receptor ROR-gamma | / | 0.445 | |
| 4anv | 751 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.445 | |
| 4b4v | L34 | Bifunctional protein FolD | / | 0.445 | |
| 4b14 | 4XB | Glycylpeptide N-tetradecanoyltransferase | / | 0.444 | |
| 1bk0 | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.443 | |
| 1nqu | RDL | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.443 | |
| 2cv2 | GSU | Glutamate--tRNA ligase | 6.1.1.17 | 0.443 | |
| 2fxv | 5GP | Xanthine phosphoribosyltransferase | 2.4.2.22 | 0.443 | |
| 3h3s | H15 | Collagen type IV alpha-3-binding protein | / | 0.443 | |
| 4v12 | POG | MaoC like domain protein | / | 0.443 | |
| 5dp2 | NAP | CurF | / | 0.443 | |
| 1nqv | LMZ | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.442 | |
| 2cvz | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.442 | |
| 2f6r | ACO | Bifunctional coenzyme A synthase | / | 0.442 | |
| 3c35 | KAI | Glutamate receptor ionotropic, kainate 1 | / | 0.442 | |
| 3fhx | PXL | Pyridoxal kinase | 2.7.1.35 | 0.442 | |
| 4anx | 534 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.442 | |
| 4gxs | 0YS | Glutamate receptor 2 | / | 0.442 | |
| 2a9y | 26A | Adenosine kinase | 2.7.1.20 | 0.441 | |
| 2iko | 7IG | Renin | 3.4.23.15 | 0.441 | |
| 2vke | TAC | Tetracycline repressor protein class D | / | 0.441 | |
| 3h3t | 16H | Collagen type IV alpha-3-binding protein | / | 0.441 | |
| 4qem | HC4 | Phospholipase A2 VRV-PL-VIIIa | / | 0.441 | |
| 3i58 | 7NA | 2,7-dihydroxy-5-methyl-1-naphthoate 7-O-methyltransferase | / | 0.440 | |
| 4frk | DWD | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 4qi7 | FAD | Cellobiose dehydrogenase | / | 0.440 |