Complex 8p7x
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 | 3.03 |
| System mass | 2369.67 kDa |
| Deposition year | 2023 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Mycoplasmoides |
| RCSB PDB Entry | 8p7x |
| Reference | Xue Liang, Spahn Christian M. T., Schacherl Magdalena, Mahamid Julia. 2025. Structural insights into context-dependent inhibitory mechanisms of chloramphenicol in cells Nature Structural & Molecular Biology |
| Equivalence Class |
NR_all_06181.4
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 | CLM |
| Residue | . / 3001 |
| Chain | HB / 3 |
| Non-redundant | True |
| Interacting RNA chains | D/3 |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | D/3: rRNA |
| RNA family global | rRNA |
| Volume | 640.38 Å3 |
| Hydrophobicity | 0.603 |
| Hydrophilicity | 1.120 |
| Buriedness | 0.804 |
| Don/acc character | 1.034 |
| SiteScore | 1.221 |
| D Score | 1.057 |
| Kd | — |
| Compound | SPM |
| Residue | . / 3226 |
| Chain | YJ / 3 |
| Non-redundant | True |
| Interacting RNA chains | D/3 |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | D/3: rRNA |
| RNA family global | rRNA |
| Volume | 695.60 Å3 |
| Hydrophobicity | 0.452 |
| Hydrophilicity | 1.425 |
| Buriedness | 0.821 |
| Don/acc character | 0.904 |
| SiteScore | 1.082 |
| D Score | 0.968 |
| Kd | — |
| Compound | SPM |
| Residue | . / 3240 |
| Chain | MK / 3 |
| Non-redundant | True |
| Interacting RNA chains | D/3 |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | D/3: rRNA |
| RNA family global | rRNA |
| Volume | 399.60 Å3 |
| Hydrophobicity | 0.691 |
| Hydrophilicity | 1.039 |
| Buriedness | 0.807 |
| Don/acc character | 1.444 |
| SiteScore | 1.223 |
| D Score | 1.086 |
| Kd | — |
| Compound | SPM |
| Residue | . / 3248 |
| Chain | UK / 3 |
| Non-redundant | True |
| Interacting RNA chains | D/3 |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | D/3: rRNA |
| RNA family global | rRNA |
| Volume | 704.87 Å3 |
| Hydrophobicity | 0.362 |
| Hydrophilicity | 1.194 |
| Buriedness | 0.752 |
| Don/acc character | 1.263 |
| SiteScore | 1.186 |
| D Score | 1.002 |
| Kd | — |
| Compound | SPM |
| Residue | . / 303 |
| Chain | CP / b |
| Non-redundant | True |
| Interacting RNA chains | D/3 |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | D/3: rRNA |
| RNA family global | rRNA |
| Volume | 627.00 Å3 |
| Hydrophobicity | 0.167 |
| Hydrophilicity | 1.104 |
| Buriedness | 0.836 |
| Don/acc character | 1.188 |
| SiteScore | 1.092 |
| D Score | 1.082 |
| Kd | — |