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 |
|---|---|---|---|
| 2poq | ISD | Trans-1,2-dihydrobenzene-1,2-diol dehydrogenase | 1.3.1.20 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2poq | ISD | Trans-1,2-dihydrobenzene-1,2-diol dehydrogenase | 1.3.1.20 | 1.000 | |
| 2bf7 | HBI | Pteridine reductase 1 | 1.5.1.33 | 0.474 | |
| 2reh | FAD | Nitroalkane oxidase | 1.7.3.1 | 0.467 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.466 | |
| 3l3r | OAG | Dihydrofolate reductase | 1.5.1.3 | 0.464 | |
| 2q15 | 3MR | Beta-secretase 1 | 3.4.23.46 | 0.459 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.459 | |
| 4mv1 | ADP | Biotin carboxylase | 6.3.4.14 | 0.459 | |
| 2bfa | CB3 | Pteridine reductase 1 | 1.5.1.33 | 0.458 | |
| 3s3v | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.458 | |
| 7std | CRP | Scytalone dehydratase | 4.2.1.94 | 0.458 | |
| 3sni | 546 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.457 | |
| 3tvx | PNX | cAMP-specific 3',5'-cyclic phosphodiesterase 4A | 3.1.4.53 | 0.457 | |
| 1blz | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.456 | |
| 3dr4 | G4M | GDP-perosamine synthase | / | 0.456 | |
| 3std | MQ0 | Scytalone dehydratase | 4.2.1.94 | 0.456 | |
| 4bfy | ZVY | Pantothenate kinase | 2.7.1.33 | 0.456 | |
| 1mkd | ZAR | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.454 | |
| 2bu9 | HFV | Isopenicillin N synthase | 1.21.3.1 | 0.454 | |
| 1kyx | CRM | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.453 | |
| 1x8l | OXR | Retinol dehydratase | / | 0.453 | |
| 2jb4 | A14 | Isopenicillin N synthase | 1.21.3.1 | 0.453 | |
| 4dbc | 3QP | Aspartate aminotransferase | 2.6.1.1 | 0.453 | |
| 1bk0 | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.452 | |
| 1nm6 | L86 | Prothrombin | 3.4.21.5 | 0.451 | |
| 3l6j | Z90 | Alr2278 protein | / | 0.451 | |
| 1aqu | EST | Estrogen sulfotransferase, testis isoform | 2.8.2.4 | 0.450 | |
| 2our | CMP | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.450 | |
| 1tbb | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.449 | |
| 2rqf | JH3 | Hemolymph juvenile hormone binding protein | / | 0.449 | |
| 4kbn | 25U | Dihydrofolate reductase | 1.5.1.3 | 0.449 | |
| 1d3p | BT3 | Prothrombin | 3.4.21.5 | 0.448 | |
| 3c1o | NAP | Eugenol synthase | / | 0.448 | |
| 3zoi | M2W | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 1tll | FMN | Nitric oxide synthase, brain | 1.14.13.39 | 0.447 | |
| 1xom | CIO | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.447 | |
| 1ejb | INJ | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.446 | |
| 1s7g | NAD | NAD-dependent protein deacylase 2 | / | 0.446 | |
| 3dr7 | GPD | GDP-perosamine synthase | / | 0.446 | |
| 4gh6 | LUO | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.446 | |
| 1y2b | DEE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.445 | |
| 3rsv | 3RS | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 4g2l | 0WL | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.445 | |
| 1dhf | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.444 | |
| 1tou | B1V | Fatty acid-binding protein, adipocyte | / | 0.444 | |
| 2ivi | ACW | Isopenicillin N synthase | 1.21.3.1 | 0.444 | |
| 4kp6 | 1S1 | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.444 | |
| 1xon | PIL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.443 | |
| 2vbp | VB1 | Isopenicillin N synthase | 1.21.3.1 | 0.443 | |
| 4bfu | ZVU | Pantothenate kinase | 2.7.1.33 | 0.443 | |
| 4bft | ZVT | Pantothenate kinase | 2.7.1.33 | 0.442 | |
| 4h6p | FMN | Chromate reductase | / | 0.442 | |
| 2fm5 | M99 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.441 | |
| 2r86 | ATP | 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase | / | 0.441 | |
| 3l9m | L9M | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.441 | |
| 3n5x | XFK | Nitric oxide synthase, brain | 1.14.13.39 | 0.441 | |
| 4zzj | CNA | NAD-dependent protein deacetylase sirtuin-1 | 3.5.1 | 0.441 | |
| 1qiq | ACC | Isopenicillin N synthase | 1.21.3.1 | 0.440 | |
| 1w06 | W05 | Isopenicillin N synthase | 1.21.3.1 | 0.440 | |
| 3g58 | 988 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.440 | |
| 3gnc | QQQ | Glutaryl-CoA dehydrogenase | / | 0.440 | |
| 3itu | IBM | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.440 | |
| 4b12 | C23 | Glycylpeptide N-tetradecanoyltransferase | / | 0.440 | |
| 4boe | CLR | Japanin | / | 0.440 | |
| 4iah | 1DX | Alr2278 protein | / | 0.440 |