Complex 9qqb
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 | 3.43 |
| System mass | 4090.61 kDa |
| Deposition year | 2025 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Oryctolagus |
| RCSB PDB Entry | 9qqb |
| Reference | Gamerdinger Martin, Echeverria Blanca, Lentzsch Alfred M., Burg Nicolas, Fan Ziyi, Jaskolowski Mateusz, Scaiola Alain, Piening Selina, Shan Shu-ou, Ban Nenad, Deuerling Elke. 2025. Mechanism of cotranslational protein N-myristoylation in human cells Molecular Cell |
| Equivalence Class |
NR_all_21280.51,
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 | SPM |
| Residue | . / 4911 |
| Chain | VC / B5 |
| Non-redundant | True |
| Interacting RNA chains | A/B5 |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | A/B5: rRNA |
| RNA family global | rRNA |
| Volume | 242.84 Å3 |
| Hydrophobicity | 0.011 |
| Hydrophilicity | 1.442 |
| Buriedness | 0.705 |
| Don/acc character | 1.718 |
| SiteScore | 0.815 |
| D Score | 0.650 |
| Kd | — |
| Compound | SPM |
| Residue | . / 4914 |
| Chain | YC / B5 |
| Non-redundant | True |
| Interacting RNA chains | A/B5 |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | A/B5: rRNA |
| RNA family global | rRNA |
| Volume | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Kd | — |
| Compound | SPM |
| Residue | . / 1909 |
| Chain | VU / A2 |
| Non-redundant | True |
| Interacting RNA chains | BB/A2 |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | BB/A2: rRNA |
| RNA family global | rRNA |
| Volume | 596.82 Å3 |
| Hydrophobicity | 0.364 |
| Hydrophilicity | 1.032 |
| Buriedness | 0.797 |
| Don/acc character | 2.792 |
| SiteScore | 1.218 |
| D Score | 1.082 |
| Kd | — |