Complex 9spi
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 | 3876.76 kDa |
| Deposition year | 2025 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Homo |
| RCSB PDB Entry | 9spi |
| Reference | Rozman Batsheva, Broennimann Karin, Rajan K. Shanmugha, Nachshon Aharon, Saha Chiranjeet, Arazi Tamar, Mohan Vishnu, Geiger Tamar, Wollner Clayton J., Richner Justin M., Westhof Eric, Yonath Ada, Bashan Anat, Stern-Ginossar Noam. 2026. N1-Methylpseudouridine directly modulates translation dynamics Nature |
| Equivalence Class |
NR_all_46995.72
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 | HYG |
| Residue | . / 1944 |
| Chain | TN / S2 |
| Non-redundant | False |
| Interacting RNA chains | XA/S2, VA/Mr |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | VA/Mr: mRNA, XA/S2: rRNA |
| RNA family global | multiple |
| Volume | 230.50 Å3 |
| Hydrophobicity | 0.065 |
| Hydrophilicity | 1.183 |
| Buriedness | 0.647 |
| Don/acc character | 2.448 |
| SiteScore | 0.730 |
| D Score | 0.640 |
| Kd | — |