Complex 8a3d
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 | 1.67 |
| System mass | 2599.22 kDa |
| Deposition year | 2022 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Homo |
| RCSB PDB Entry | 8a3d |
| Reference | Faille Alexandre, Dent Kyle C., Pellegrino Simone, Jaako Pekka, Warren Alan J. 2023. The chemical landscape of the human ribosome at 1.67 Å resolution preprint (bioRxiv) |
| Equivalence Class |
NR_all_65061.63
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 | EPE |
| Residue | . / 5457 |
| Chain | LO / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | A/A: rRNA |
| RNA family global | rRNA |
| Volume | 786.50 Å3 |
| Hydrophobicity | 0.421 |
| Hydrophilicity | 1.146 |
| Buriedness | 0.772 |
| Don/acc character | 0.555 |
| SiteScore | 1.050 |
| D Score | 1.030 |
| Kd | — |
| Compound | HMT |
| Residue | . / 5455 |
| Chain | JO / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | A/A: rRNA |
| RNA family global | rRNA |
| Volume | 332.71 Å3 |
| Hydrophobicity | 0.524 |
| Hydrophilicity | 0.879 |
| Buriedness | 0.617 |
| Don/acc character | 1.885 |
| SiteScore | 1.127 |
| D Score | 1.024 |
| Kd | — |
| Compound | SPM |
| Residue | . / 5456 |
| Chain | KO / 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 | 666.45 Å3 |
| Hydrophobicity | 0.121 |
| Hydrophilicity | 2.080 |
| Buriedness | 0.864 |
| Don/acc character | 0.827 |
| SiteScore | 1.111 |
| D Score | 0.780 |
| Kd | — |