Complex 9qqa
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 | 2.80 |
| System mass | 3954.49 kDa |
| Deposition year | 2025 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Oryctolagus |
| RCSB PDB Entry | 9qqa |
| 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 | . / 2044 |
| Chain | VH / A2 |
| Non-redundant | False |
| Interacting RNA chains | A/A2 |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | A/A2: rRNA |
| RNA family global | rRNA |
| Volume | 766.95 Å3 |
| Hydrophobicity | 0.340 |
| Hydrophilicity | 0.993 |
| Buriedness | 0.780 |
| Don/acc character | 2.504 |
| SiteScore | 1.214 |
| D Score | 1.084 |
| Kd | — |
| Compound | SPM |
| Residue | . / 5142 |
| Chain | MR / B5 |
| Non-redundant | True |
| Interacting RNA chains | KA/B5 |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | KA/B5: rRNA |
| RNA family global | rRNA |
| Volume | 225.35 Å3 |
| Hydrophobicity | 0.000 |
| Hydrophilicity | 1.359 |
| Buriedness | 0.688 |
| Don/acc character | 1.809 |
| SiteScore | 0.813 |
| D Score | 0.679 |
| Kd | — |
| Compound | SPM |
| Residue | . / 5143 |
| Chain | NR / B5 |
| Non-redundant | True |
| Interacting RNA chains | KA/B5 |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | KA/B5: rRNA |
| RNA family global | rRNA |
| Volume | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Kd | — |