Complex 8xsz
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 | 3.20 |
| System mass | 3982.70 kDa |
| Deposition year | 2024 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Homo |
| RCSB PDB Entry | 8xsz |
| Reference | Li Xiang, Wang Mengjiao, Denk Timo, Buschauer Robert, Li Yi, Beckmann Roland, Cheng Jingdong. 2024. Structural basis for differential inhibition of eukaryotic ribosomes by tigecycline Nature Communications |
| 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 | T1C |
| Residue | . / 5310 |
| Chain | JK / L5 |
| Non-redundant | True |
| Interacting RNA chains | A/L5, C/L8 |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | A/L5: rRNA, C/L8: rRNA |
| RNA family global | rRNA |
| Volume | 338.20 Å3 |
| Hydrophobicity | 0.069 |
| Hydrophilicity | 1.588 |
| Buriedness | 0.698 |
| Don/acc character | 0.678 |
| SiteScore | 1.108 |
| D Score | 0.788 |
| Kd | — |
| Compound | T1C |
| Residue | . / 5311 |
| Chain | KK / L5 |
| Non-redundant | True |
| Interacting RNA chains | A/L5 |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/L5: rRNA |
| RNA family global | rRNA |
| Volume | 73.75 Å3 |
| Hydrophobicity | 0.217 |
| Hydrophilicity | 0.988 |
| Buriedness | 0.567 |
| Don/acc character | 1.505 |
| SiteScore | 0.888 |
| D Score | 0.722 |
| Kd | — |
| Compound | T1C |
| Residue | . / 5312 |
| Chain | LK / L5 |
| Non-redundant | True |
| Interacting RNA chains | A/L5 |
| RNA environment detailled | other |
| RNA environment global | RNA/Other |
| RNA family chains | A/L5: rRNA |
| RNA family global | rRNA |
| Volume | 350.55 Å3 |
| Hydrophobicity | 0.063 |
| Hydrophilicity | 1.237 |
| Buriedness | 0.665 |
| Don/acc character | 2.146 |
| SiteScore | 1.128 |
| D Score | 0.936 |
| Kd | — |
| Compound | T1C |
| Residue | . / 5313 |
| Chain | MK / L5 |
| Non-redundant | True |
| Interacting RNA chains | A/L5 |
| RNA environment detailled | other |
| RNA environment global | RNA/Other |
| RNA family chains | A/L5: rRNA |
| RNA family global | rRNA |
| Volume | 451.39 Å3 |
| Hydrophobicity | 0.338 |
| Hydrophilicity | 1.079 |
| Buriedness | 0.679 |
| Don/acc character | 2.344 |
| SiteScore | 0.987 |
| D Score | 0.996 |
| Kd | — |
| Compound | T1C |
| Residue | . / 5314 |
| Chain | NK / L5 |
| Non-redundant | True |
| Interacting RNA chains | A/L5 |
| RNA environment detailled | other |
| RNA environment global | RNA/Other |
| RNA family chains | A/L5: rRNA |
| RNA family global | rRNA |
| Volume | 171.84 Å3 |
| Hydrophobicity | 0.044 |
| Hydrophilicity | 1.460 |
| Buriedness | 0.666 |
| Don/acc character | 2.784 |
| SiteScore | 0.818 |
| D Score | 0.658 |
| Kd | — |