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 |
|---|---|---|---|
| 2bt4 | CA2 | 3-dehydroquinate dehydratase | 4.2.1.10 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2bt4 | CA2 | 3-dehydroquinate dehydratase | 4.2.1.10 | 1.000 | |
| 2cjf | RP4 | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.616 | |
| 4b6s | 2HN | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.571 | |
| 3n87 | N87 | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.570 | |
| 2xb9 | XNW | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.559 | |
| 4b6r | 3DQ | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.550 | |
| 2xda | JPS | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.510 | |
| 2wks | CB6 | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.507 | |
| 3n76 | CA2 | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.502 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.491 | |
| 2xb8 | XNW | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.488 | |
| 4bfz | ZVZ | Pantothenate kinase | 2.7.1.33 | 0.486 | |
| 4bf9 | FMN | tRNA-dihydrouridine(16) synthase | / | 0.479 | |
| 4fhd | 0TT | Spore photoproduct lyase | / | 0.474 | |
| 2y71 | CB6 | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.470 | |
| 4g8j | THM | Uridine phosphorylase | / | 0.470 | |
| 4fhf | 0TT | Spore photoproduct lyase | / | 0.463 | |
| 3vx4 | ATP | Putative ABC transporter, ATP-binding protein ComA | / | 0.462 | |
| 1u1f | 183 | Uridine phosphorylase | 2.4.2.3 | 0.460 | |
| 1u1g | BBB | Uridine phosphorylase | 2.4.2.3 | 0.456 | |
| 2v58 | LZJ | Biotin carboxylase | 6.3.4.14 | 0.456 | |
| 2xlr | FAD | Putative flavin-containing monooxygenase | / | 0.454 | |
| 4ih7 | 1ER | Genome polyprotein | 2.7.7.48 | 0.453 | |
| 4qzu | RTL | Retinol-binding protein 2 | / | 0.452 | |
| 4req | 5AD | Methylmalonyl-CoA mutase large subunit | 5.4.99.2 | 0.452 | |
| 2iqg | F2I | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 3wqm | B29 | Diterpene synthase | 3.1.7.8 | 0.450 | |
| 1rsg | FAD | Polyamine oxidase FMS1 | / | 0.449 | |
| 3fsk | RO6 | Mitogen-activated protein kinase 14 | / | 0.449 | |
| 1u1d | 181 | Uridine phosphorylase | 2.4.2.3 | 0.447 | |
| 3cgt | BCD | Cyclomaltodextrin glucanotransferase | 2.4.1.19 | 0.447 | |
| 1kqn | NAD | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 1 | 2.7.7.1 | 0.446 | |
| 2vkm | BSD | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 1x27 | ASP_TYR_VAL_HIS_PTR | Tyrosine-protein kinase Lck | 2.7.10.2 | 0.445 | |
| 2cft | PLP | Pyridoxal phosphate phosphatase | / | 0.445 | |
| 3h0b | B35 | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 3n8n | N88 | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.445 | |
| 3nut | SAH | Precorrin-3 methylase | / | 0.445 | |
| 3o4r | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.445 | |
| 2ea2 | F77 | Methionine aminopeptidase 2 | / | 0.444 | |
| 2ges | COK | Pantothenate kinase | 2.7.1.33 | 0.444 | |
| 3ske | 054 | Genome polyprotein | 2.7.7.48 | 0.444 | |
| 4wuo | NAD | 3-isopropylmalate dehydrogenase | 1.1.1.85 | 0.444 | |
| 1jue | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.443 | |
| 3k3h | BYE | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.443 | |
| 4mk7 | 28O | Genome polyprotein | 2.7.7.48 | 0.443 | |
| 3tw3 | ATP | RNA 3'-terminal phosphate cyclase | 6.5.1.4 | 0.442 | |
| 4bfs | ZVS | Pantothenate kinase | 2.7.1.33 | 0.442 | |
| 2c29 | NAP | Dihydroflavonol 4-reductase | / | 0.441 | |
| 1hbv | GAN | Gag-Pol polyprotein | / | 0.440 | |
| 3f3s | NAD | Lambda-crystallin homolog | / | 0.440 |