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 |
|---|---|---|---|
| 3r0i | C0K | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3r0i | C0K | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 1.000 | |
| 4kp7 | 1UQ | 1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic | 1.1.1.267 | 0.511 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.493 | |
| 4anx | 534 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.488 | |
| 1psa | 0ZL | Pepsin A | 3.4.23.1 | 0.470 | |
| 2ivp | ATP | tRNA N6-adenosine threonylcarbamoyltransferase | / | 0.470 | |
| 4jnk | ZHK | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.469 | |
| 1tez | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.466 | |
| 1qrp | HH0 | Pepsin A-4 | 3.4.23.1 | 0.465 | |
| 2a94 | AP0 | L-lactate dehydrogenase | 1.1.1.27 | 0.465 | |
| 3nmp | PYV | Abscisic acid receptor PYL2 | / | 0.463 | |
| 3rga | ILD | Epoxide hydrolase LasB | 5.5.1 | 0.460 | |
| 1p31 | EPU | UDP-N-acetylmuramate--L-alanine ligase | 6.3.2.8 | 0.459 | |
| 2c3q | GTX | Glutathione S-transferase theta-1 | 2.5.1.18 | 0.459 | |
| 3a3g | DLZ | Lumazine protein | / | 0.457 | |
| 3fhx | PXL | Pyridoxal kinase | 2.7.1.35 | 0.457 | |
| 3fpz | AHZ | Thiamine thiazole synthase | / | 0.457 | |
| 2bi4 | NAD | Lactaldehyde reductase | 1.1.1.77 | 0.455 | |
| 1k6p | XN3 | Gag-Pol polyprotein | 3.4.23.16 | 0.454 | |
| 1bv9 | XV6 | Gag-Pol polyprotein | 3.4.23.16 | 0.452 | |
| 4dfg | 0JV | Gag-Pol polyprotein | 3.4.23.16 | 0.452 | |
| 1fm4 | DXC | Major pollen allergen Bet v 1-L | / | 0.450 | |
| 3nsh | 957 | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 4anu | EM7 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.450 | |
| 4i0i | 957 | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 4nd3 | NAD | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.450 | |
| 4yao | FMN | NADPH--cytochrome P450 reductase | / | 0.450 | |
| 2bl4 | NAD | Lactaldehyde reductase | 1.1.1.77 | 0.449 | |
| 1k6t | XN1 | Gag-Pol polyprotein | 3.4.23.16 | 0.448 | |
| 1rby | KEU | Trifunctional purine biosynthetic protein adenosine-3 | 2.1.2.2 | 0.448 | |
| 2vr1 | ATF | Biotin carboxylase | 6.3.4.14 | 0.448 | |
| 2y0m | ACO | Histone acetyltransferase KAT8 | / | 0.448 | |
| 3vyf | VYF | Renin | 3.4.23.15 | 0.448 | |
| 4i13 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 4gav | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.447 | |
| 1mj9 | COA | Histone acetyltransferase ESA1 | / | 0.446 | |
| 1msm | JE2 | Gag-Pol polyprotein | 3.4.23.16 | 0.446 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.446 | |
| 3cin | NAD | Myo-inositol-1-phosphate synthase-related protein | / | 0.446 | |
| 2oap | ANP | Type II secretion system protein (GspE-2) | / | 0.445 | |
| 3bgb | LJG | Gag-Pol polyprotein | 3.4.23.16 | 0.445 | |
| 3ivg | FG5 | Pantothenate synthetase | 6.3.2.1 | 0.445 | |
| 1u3d | FAD | Cryptochrome-1 | / | 0.444 | |
| 3cls | FAD | Electron transfer flavoprotein subunit alpha | / | 0.444 | |
| 3d91 | REM | Renin | 3.4.23.15 | 0.444 | |
| 3te5 | NAI | 5'-AMP-activated protein kinase subunit gamma | / | 0.444 | |
| 4dt9 | GMP | APH(2'')-Id | / | 0.444 | |
| 3bgc | LJH | Gag-Pol polyprotein | 3.4.23.16 | 0.442 | |
| 3clr | FAD | Electron transfer flavoprotein subunit alpha | / | 0.442 | |
| 3uyl | TYD | Probable NDP-rhamnosyltransferase | / | 0.442 | |
| 4a83 | DXC | Major pollen allergen Bet v 1-A | / | 0.442 | |
| 4n6h | EJ4 | Delta-type opioid receptor | / | 0.442 | |
| 4z61 | ILE_THR_GLN_TYS_TYS | Phytosulfokine receptor 1 | 2.7.11.1 | 0.442 | |
| 1omo | NAD | Alanine dehydrogenase | / | 0.441 | |
| 1zrq | FAD | 5,10-methylenetetrahydrofolate reductase | 1.5.1.20 | 0.441 | |
| 3e8n | VRA | Dual specificity mitogen-activated protein kinase kinase 1 | 2.7.12.2 | 0.441 | |
| 4exg | 916 | Beta-secretase 1 | 3.4.23.46 | 0.441 | |
| 1sgu | MK1 | Gag-Pol polyprotein | 3.4.23.16 | 0.440 | |
| 2yj5 | ATP | Copper-transporting ATPase | / | 0.440 | |
| 3k5c | 0BI | Beta-secretase 1 | 3.4.23.46 | 0.440 |