Complex 7qiw
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 | 2.35 |
| System mass | 1992.65 kDa |
| Deposition year | 2021 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Solanum |
| RCSB PDB Entry | 7qiw |
| Reference | Cottilli Patrick, Itoh Yuzuru, Nobe Yuko, Petrov Anton S., Lisón Purificación, Taoka Masato, Amunts Alexey. 2022. Cryo-EM structure and rRNA modification sites of a plant ribosome Plant Communications |
| Equivalence Class |
NR_all_95195.3
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 | SPM |
| Residue | . / 3480 |
| Chain | OE / 2 |
| Non-redundant | True |
| Interacting RNA chains | QA/2 |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | QA/2: rRNA |
| RNA family global | rRNA |
| Volume | 713.44 Å3 |
| Hydrophobicity | 0.250 |
| Hydrophilicity | 1.425 |
| Buriedness | 0.860 |
| Don/acc character | 1.094 |
| SiteScore | 1.108 |
| D Score | 0.992 |
| Kd | — |
| Compound | SPM |
| Residue | . / 3481 |
| Chain | PE / 2 |
| Non-redundant | True |
| Interacting RNA chains | QA/2 |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | QA/2: rRNA |
| RNA family global | rRNA |
| Volume | 906.21 Å3 |
| Hydrophobicity | 0.166 |
| Hydrophilicity | 1.651 |
| Buriedness | 0.893 |
| Don/acc character | 0.971 |
| SiteScore | 1.131 |
| D Score | 0.938 |
| Kd | — |
| Compound | SPM |
| Residue | . / 3483 |
| Chain | RE / 2 |
| Non-redundant | True |
| Interacting RNA chains | SA/8, QA/2 |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | QA/2: rRNA, SA/8: rRNA |
| RNA family global | rRNA |
| Volume | 960.74 Å3 |
| Hydrophobicity | 0.381 |
| Hydrophilicity | 1.406 |
| Buriedness | 0.883 |
| Don/acc character | 0.791 |
| SiteScore | 1.123 |
| D Score | 1.011 |
| Kd | — |