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 |
|---|---|---|---|
| 1orr | NAD | CDP-paratose 2-epimerase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1orr | NAD | CDP-paratose 2-epimerase | / | 1.000 | |
| 3e8n | VRA | Dual specificity mitogen-activated protein kinase kinase 1 | 2.7.12.2 | 0.481 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.472 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.468 | |
| 3uoy | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.464 | |
| 1w6h | TIT | Plasmepsin-2 | 3.4.23.39 | 0.463 | |
| 3lpk | Z76 | Beta-secretase 1 | 3.4.23.46 | 0.461 | |
| 4i8z | G08 | Gag-Pol polyprotein | 3.4.23.16 | 0.461 | |
| 3oib | FDA | Putative acyl-CoA dehydrogenase | / | 0.460 | |
| 5eb5 | FAD | (R)-mandelonitrile lyase 1 | 4.1.2.10 | 0.460 | |
| 1t2c | NAI | L-lactate dehydrogenase | 1.1.1.27 | 0.455 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.454 | |
| 2dxx | SAH | Diphthine synthase | / | 0.453 | |
| 3clr | FAD | Electron transfer flavoprotein subunit alpha | / | 0.453 | |
| 4amb | DUD | Putative glycosyl transferase | / | 0.453 | |
| 4jnk | ZHK | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.453 | |
| 3in6 | FMN | Uncharacterized protein | / | 0.452 | |
| 4trn | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.452 | |
| 1psa | 0ZL | Pepsin A | 3.4.23.1 | 0.451 | |
| 2bi8 | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.450 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.450 | |
| 4xgu | ADP | Putative pachytene checkpoint protein 2 | / | 0.449 | |
| 2cmj | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.448 | |
| 2owk | SAH | Diphthine synthase | / | 0.448 | |
| 2rbe | NDP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.448 | |
| 3tjz | GNP | ADP-ribosylation factor 1 | / | 0.448 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.446 | |
| 1qrp | HH0 | Pepsin A-4 | 3.4.23.1 | 0.446 | |
| 1rp0 | AHZ | Thiamine thiazole synthase, chloroplastic | / | 0.446 | |
| 1xe6 | 5FP | Plasmepsin-2 | 3.4.23.39 | 0.446 | |
| 2b8l | 5HA | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 2irz | I02 | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 2z54 | AB1 | Gag-Pol polyprotein | 3.4.23.16 | 0.446 | |
| 3uoz | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.446 | |
| 3vqs | JT1 | Genome polyprotein | / | 0.446 | |
| 4gxs | 0YS | Glutamate receptor 2 | / | 0.446 | |
| 4i6a | HMG | 3-hydroxy-3-methylglutaryl-coenzyme A reductase | 1.1.1.88 | 0.446 | |
| 5eai | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.446 | |
| 2fxv | 5GP | Xanthine phosphoribosyltransferase | 2.4.2.22 | 0.445 | |
| 2pb5 | SAH | Diphthine synthase | / | 0.445 | |
| 2z6u | SAH | Modification methylase HhaI | 2.1.1.37 | 0.445 | |
| 2ztm | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.445 | |
| 3gw9 | VNI | Lanosterol 14-alpha-demethylase | / | 0.445 | |
| 5dpv | SKE | Aurora kinase A | 2.7.11.1 | 0.445 | |
| 2ejk | SAH | Diphthine synthase | / | 0.444 | |
| 2rhg | IGP | Tryptophan synthase alpha chain | / | 0.444 | |
| 3cic | 316 | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.443 | |
| 2pck | SAH | Diphthine synthase | / | 0.443 | |
| 5c8w | PCG | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.443 | |
| 1lbc | CYZ | Glutamate receptor 2 | / | 0.442 | |
| 1nuu | NAD | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3 | / | 0.442 | |
| 2p5c | SAH | Diphthine synthase | / | 0.442 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.442 | |
| 5dp2 | NAP | CurF | / | 0.442 | |
| 2iqg | F2I | Beta-secretase 1 | 3.4.23.46 | 0.441 | |
| 2y0m | ACO | Histone acetyltransferase KAT8 | / | 0.441 | |
| 3rq6 | APR | ADP-dependent (S)-NAD(P)H-hydrate dehydratase | / | 0.441 | |
| 1tqf | 32P | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 2giv | ACO | Histone acetyltransferase KAT8 | / | 0.440 | |
| 2p83 | MR0 | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 3f3s | NAD | Lambda-crystallin homolog | / | 0.440 | |
| 3ohh | 3HH | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 3to6 | LYS_CMC | Histone acetyltransferase ESA1 | / | 0.440 | |
| 4eue | NAI | Trans-2-enoyl-CoA reductase [NADH] | / | 0.440 |