Complex 7p2e
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 | 2.40 |
| System mass | 1179.81 kDa |
| Deposition year | 2021 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Homo |
| RCSB PDB Entry | 7p2e |
| Reference | Itoh Yuzuru, Singh Vivek, Khawaja Anas, Naschberger Andreas, Nguyen Minh Duc, Rorbach Joanna, Amunts Alexey. 2022. Structure of the mitoribosomal small subunit with streptomycin reveals Fe-S clusters and physiological molecules eLife |
| Equivalence Class |
NR_all_93855.32
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 | 5I0 |
| Residue | . / 1703 |
| Chain | IA / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | A/A: rRNA |
| RNA family global | rRNA |
| Volume | 206.14 Å3 |
| Hydrophobicity | 0.108 |
| Hydrophilicity | 1.623 |
| Buriedness | 0.610 |
| Don/acc character | 0.829 |
| SiteScore | 0.935 |
| D Score | 0.577 |
| Kd | — |
| Compound | NAD |
| Residue | . / 1701 |
| Chain | GA / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | A/A: rRNA |
| RNA family global | rRNA |
| Volume | 961.43 Å3 |
| Hydrophobicity | 0.246 |
| Hydrophilicity | 1.462 |
| Buriedness | 0.825 |
| Don/acc character | 0.754 |
| SiteScore | 1.085 |
| D Score | 0.959 |
| Kd | — |
| Compound | SPM |
| Residue | . / 1702 |
| Chain | HA / A |
| Non-redundant | False |
| Interacting RNA chains | A/A |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | A/A: rRNA |
| RNA family global | rRNA |
| Volume | 727.85 Å3 |
| Hydrophobicity | 0.142 |
| Hydrophilicity | 1.661 |
| Buriedness | 0.814 |
| Don/acc character | 1.354 |
| SiteScore | 1.227 |
| D Score | 0.887 |
| Kd | — |