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 |
|---|---|---|---|
| 4hnc | 0UT | Mandelate racemase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4hnc | 0UT | Mandelate racemase | / | 1.000 | |
| 4fa6 | 0TA | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.482 | |
| 4v12 | POG | MaoC like domain protein | / | 0.478 | |
| 1soj | IBM | cGMP-inhibited 3',5'-cyclic phosphodiesterase B | 3.1.4.17 | 0.476 | |
| 3njo | P2M | Abscisic acid receptor PYR1 | / | 0.472 | |
| 1oc1 | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.469 | |
| 1vrw | NAI | Enoyl-ACP reductase | / | 0.466 | |
| 2y8l | ADP | 5'-AMP-activated protein kinase subunit gamma-1 | / | 0.465 | |
| 2eau | CZA | Sarcoplasmic/endoplasmic reticulum calcium ATPase 1 | 3.6.3.8 | 0.464 | |
| 5hs1 | VOR | Lanosterol 14-alpha demethylase | / | 0.464 | |
| 4qa2 | SHH | Histone deacetylase 8 | 3.5.1.98 | 0.462 | |
| 1e90 | MYC | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.461 | |
| 4hle | 17V | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.461 | |
| 2cch | ATP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.460 | |
| 1qiq | ACC | Isopenicillin N synthase | 1.21.3.1 | 0.458 | |
| 2y8q | ADP | 5'-AMP-activated protein kinase subunit gamma-1 | / | 0.458 | |
| 1t85 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.456 | |
| 4n6h | EJ4 | Delta-type opioid receptor | / | 0.456 | |
| 3nr4 | PYV | Abscisic acid receptor PYL2 | / | 0.455 | |
| 1rek | B8L | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.454 | |
| 3byz | H11 | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.454 | |
| 3kjs | DQ1 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.454 | |
| 3r7k | FDA | Probable acyl CoA dehydrogenase | / | 0.454 | |
| 1dz4 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.453 | |
| 1dz6 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.453 | |
| 2wey | EV1 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.453 | |
| 3fwi | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.453 | |
| 1t88 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.452 | |
| 3fwf | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.452 | |
| 3rai | X85 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.451 | |
| 3l63 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.450 | |
| 2w6o | OA3 | Biotin carboxylase | 6.3.4.14 | 0.449 | |
| 3njo | PYV | Abscisic acid receptor PYR1 | / | 0.449 | |
| 4qa0 | SHH | Histone deacetylase 8 | 3.5.1.98 | 0.449 | |
| 1fmj | RTL | Retinol dehydratase | / | 0.448 | |
| 3iod | A6D | Pantothenate synthetase | 6.3.2.1 | 0.447 | |
| 3nmp | PYV | Abscisic acid receptor PYL2 | / | 0.447 | |
| 3sa2 | 7DR | Dihydrofolate reductase | / | 0.447 | |
| 4dsc | A8S | Abscisic acid receptor PYL3 | / | 0.447 | |
| 4fjy | FJY | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.447 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.447 | |
| 5c1m | CLR | Mu-type opioid receptor | / | 0.447 | |
| 6cp4 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.447 | |
| 1hb3 | SCV | Isopenicillin N synthase | 1.21.3.1 | 0.446 | |
| 2brn | DF1 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.446 | |
| 2rlc | CHD | Choloylglycine hydrolase | 3.5.1.24 | 0.446 | |
| 3zoi | M2W | Isopenicillin N synthase | 1.21.3.1 | 0.446 | |
| 4yao | FMN | NADPH--cytochrome P450 reductase | / | 0.446 | |
| 1fvt | 106 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.445 | |
| 1obn | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 1rx3 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.445 | |
| 3ch6 | 311 | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.445 | |
| 3qlz | QLZ | Uncharacterized protein | / | 0.445 | |
| 4b99 | R4L | Mitogen-activated protein kinase 7 | 2.7.11.24 | 0.445 | |
| 4g3r | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.445 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.445 | |
| 1mcz | TDP | Benzoylformate decarboxylase | 4.1.1.7 | 0.444 | |
| 2wo7 | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.444 | |
| 3fwj | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.444 | |
| 3lxi | CAM | Cytochrome P450 | / | 0.444 | |
| 3ujl | A8S | Abscisic acid receptor PYL2 | / | 0.444 | |
| 4fad | 0TB | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.444 | |
| 5ack | ATP | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.444 | |
| 2hb8 | MVD | Vitamin D3 receptor | / | 0.443 | |
| 2z97 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.443 | |
| 4lga | A2O | Abscisic acid receptor PYL2 | / | 0.443 | |
| 4z61 | ILE_THR_GLN_TYS_TYS | Phytosulfokine receptor 1 | 2.7.11.1 | 0.443 | |
| 2fzn | FAD | Bifunctional protein PutA | 1.5.5.2 | 0.442 | |
| 3ml8 | ML8 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.442 | |
| 3wrj | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.442 | |
| 3zvu | A8S | Abscisic acid receptor PYR1 | / | 0.442 | |
| 4lg5 | A1O | Abscisic acid receptor PYL2 | / | 0.442 | |
| 1bk0 | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 1dz8 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.441 | |
| 1e8z | STU | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.441 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.441 | |
| 2y60 | M8F | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 2yee | 2EC | Heat shock protein HSP 90-alpha | / | 0.441 | |
| 2zba | ZBA | Trichothecene 3-O-acetyltransferase | / | 0.441 | |
| 3w0g | W07 | Vitamin D3 receptor | / | 0.441 | |
| 3w32 | W32 | Epidermal growth factor receptor | 2.7.10.1 | 0.441 | |
| 4h4u | NDP | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.441 | |
| 4ks7 | X4Z | Serine/threonine-protein kinase PAK 6 | 2.7.11.1 | 0.441 | |
| 2brg | DFY | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.440 | |
| 2d1c | NAP | Isocitrate dehydrogenase [NADP] | 1.1.1.42 | 0.440 | |
| 2nv6 | ZID | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.440 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.440 | |
| 2vcm | M11 | Isopenicillin N synthase | 1.21.3.1 | 0.440 | |
| 4f4d | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.440 | |
| 4xwt | U5P | Ribonuclease J | / | 0.440 |