Complex 7mdz
Legend
Pocket colors by molecule type
RNA
Protein
DNA
These colors appear when a pocket is selected (the structure fades to show the pocket surface). Colors from the molecule-type palette (RNA / protein / DNA).
System information
| Experimental technique | Electron Microscopy |
| Experimental resolution | 3.20 |
| System mass | 3363.84 kDa |
| Deposition year | 2021 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Oryctolagus |
| RCSB PDB Entry | 7mdz |
| Reference | Koga Yumi, Hoang Eileen M., Park Yongho, Keszei Alexander F.A., Murray Jason, Shao Sichen, Liau Brian B.. 2021. Discovery of C13-Aminobenzoyl Cycloheximide Derivatives that Potently Inhibit Translation Elongation Journal of the American Chemical Society |
| Equivalence Class |
NR_all_06650.50
BGSU version: 4.52 |
Pockets List
Legend
Cell colors for SiteScore and D Score:
Favourable
Intermediate
Unfavourable
Not available
| Score | Threshold | Meaning |
|---|---|---|
| SiteScore | < 0.8 | Non-drug binding site |
| SiteScore | 0.8 – 1.0 | Potential drug binding site |
| SiteScore | > 1.0 | Promising binding site |
| D Score | < 0.83 | Undruggable |
| D Score | 0.83 – 0.98 | Difficult |
| D Score | > 0.98 | Druggable |
Tick a pocket below to highlight it in the 3D structure above.
| Compound | Z2V |
| Residue | . / 5288 |
| Chain | WJ / 5 |
| Non-redundant | True |
| Interacting RNA chains | XB/5 |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | XB/5: rRNA |
| RNA family global | rRNA |
| Volume | 700.41 Å3 |
| Hydrophobicity | 0.241 |
| Hydrophilicity | 1.359 |
| Buriedness | 0.780 |
| Don/acc character | 0.767 |
| SiteScore | 1.055 |
| D Score | 0.965 |
| Kd | — |