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 |
|---|---|---|---|
| 3q7d | NPX | Prostaglandin G/H synthase 2 | 1.14.99.1 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3q7d | NPX | Prostaglandin G/H synthase 2 | 1.14.99.1 | 1.000 | |
| 4cox | IMN | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.656 | |
| 3rr3 | FLR | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.649 | |
| 4fm5 | DF0 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.627 | |
| 1eqh | FLP | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.579 | |
| 3mqe | 416 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.579 | |
| 3ntg | D72 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.579 | |
| 2ayl | FLP | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.577 | |
| 3n8w | FLP | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.573 | |
| 6cox | S58 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.573 | |
| 4rrx | LUR | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.569 | |
| 3ln1 | CEL | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.567 | |
| 4ph9 | IBP | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.559 | |
| 1eqg | IBP | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.556 | |
| 3n8x | NIM | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.548 | |
| 3ln0 | 52B | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.545 | |
| 3pgh | FLP | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.545 | |
| 4oty | LUR | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.540 | |
| 1ht8 | 34C | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.536 | |
| 5ikr | ID8 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.530 | |
| 1q4g | BFL | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.528 | |
| 2oye | IM8 | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.523 | |
| 5ikq | JMS | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.521 | |
| 3n8z | FLP | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.505 | |
| 3kk6 | CEL | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.501 | |
| 4rrw | LUR | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.500 | |
| 4rrz | LUR | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.500 | |
| 1pxx | DIF | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.496 | |
| 1ht5 | FL2 | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.491 | |
| 2om9 | AJA | Peroxisome proliferator-activated receptor gamma | / | 0.486 | |
| 5ikt | TLF | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.482 | |
| 2oyu | IMS | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.481 | |
| 5eai | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.481 | |
| 1txi | TX5 | Vitamin D3 receptor | / | 0.472 | |
| 3p3z | P3Z | Putative cytochrome P450 | / | 0.471 | |
| 1dxo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.467 | |
| 3n8y | DIF | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.467 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.466 | |
| 4eiy | ZMA | Adenosine receptor A2a | / | 0.466 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.465 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.463 | |
| 1qlh | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.463 | |
| 4kl9 | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.463 | |
| 2zl9 | VDA | Vitamin D3 receptor | / | 0.461 | |
| 3sn6 | P0G | Beta-2 adrenergic receptor | / | 0.460 | |
| 1a8p | FAD | Ferredoxin--NADP reductase | / | 0.459 | |
| 1h69 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.459 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.459 | |
| 4fhi | 0S4 | Vitamin D3 receptor A | / | 0.458 | |
| 2o4r | VD5 | Vitamin D3 receptor | / | 0.457 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.457 | |
| 1nuu | NAD | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3 | / | 0.456 | |
| 3kpz | ZNE | Vitamin D3 receptor | / | 0.454 | |
| 1zhw | HC2 | Oxysterol-binding protein homolog 4 | / | 0.453 | |
| 1fmj | RTL | Retinol dehydratase | / | 0.452 | |
| 2nru | T12 | Interleukin-1 receptor-associated kinase 4 | 2.7.11.1 | 0.452 | |
| 3qlr | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.452 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.452 | |
| 1cx2 | S58 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.451 | |
| 3w5r | LOA | Vitamin D3 receptor | / | 0.451 | |
| 4zs2 | FLU | Alpha-ketoglutarate-dependent dioxygenase FTO | / | 0.450 | |
| 1s19 | MC9 | Vitamin D3 receptor | / | 0.449 | |
| 3stu | DK3 | Methylketone synthase I | / | 0.449 | |
| 5byl | GCP | Bifunctional AAC/APH | 2.3.1 | 0.449 | |
| 1n83 | CLR | Nuclear receptor ROR-alpha | / | 0.448 | |
| 2iya | ZIO | Oleandomycin glycosyltransferase | / | 0.448 | |
| 3w5p | 4OA | Vitamin D3 receptor | / | 0.448 | |
| 3w78 | CBD | FMN-dependent NADH-azoreductase | / | 0.448 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 4g8z | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 1rkh | VD2 | Vitamin D3 receptor | / | 0.447 | |
| 2cmj | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.447 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.447 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.446 | |
| 1dxq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.446 | |
| 1qvn | FRI | Interleukin-2 | / | 0.446 | |
| 3d7k | D7K | Benzaldehyde lyase | / | 0.446 | |
| 3kjs | NAP | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.446 | |
| 4jlc | SU6 | Serine/threonine-protein kinase TBK1 | 2.7.11.1 | 0.446 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.446 | |
| 2c59 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.445 | |
| 2lba | CHO | Fatty acid binding protein 6 | / | 0.445 | |
| 3vrv | YSD | Vitamin D3 receptor | / | 0.445 | |
| 1fdw | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.444 | |
| 2go4 | TUX | UDP-3-O-acyl-N-acetylglucosamine deacetylase | / | 0.444 | |
| 2y05 | NAP | Prostaglandin reductase 1 | / | 0.444 | |
| 4m10 | ICD | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.444 | |
| 4k5y | 1Q5 | Corticotropin-releasing factor receptor 1 | / | 0.444 | |
| 1gg5 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.443 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.443 | |
| 1rkx | NAD | CDP-D-glucose-4,6-dehydratase | / | 0.443 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.443 | |
| 3dhe | AND | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.443 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.443 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.443 | |
| 3w0h | W12 | Vitamin D3 receptor | / | 0.443 | |
| 1nyt | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.442 | |
| 2f4b | EHA | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 3vsp | EK8 | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 4fk8 | FAD | Ferredoxin--NADP reductase | / | 0.442 | |
| 1lf3 | EH5 | Plasmepsin-2 | 3.4.23.39 | 0.441 | |
| 1nq1 | 4HY | Thyroid hormone receptor beta | / | 0.441 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.441 | |
| 3mnr | SD1 | Heat shock protein HSP 90-alpha | / | 0.441 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 4enh | FVX | Cholesterol 24-hydroxylase | / | 0.441 | |
| 4g20 | 484 | Vitamin D3 receptor A | / | 0.441 | |
| 1ie8 | KH1 | Vitamin D3 receptor | / | 0.440 | |
| 1q12 | ATP | Maltose/maltodextrin import ATP-binding protein MalK | / | 0.440 | |
| 2ath | 3EA | Peroxisome proliferator-activated receptor gamma | / | 0.440 | |
| 3zcw | 4A2 | Kinesin-like protein KIF11 | / | 0.440 | |
| 4o70 | 1QK | Bromodomain-containing protein 4 | / | 0.440 |