Complex 5ndj
System information
| Experimental technique | X-ray |
| Experimental resolution | 3.15 |
| System mass | 4529.17 kDa |
| Deposition year | 2017 |
| Molecule type | RNA/Protein |
| # RNA entities | 5 |
| Organism | Thermus |
| RCSB PDB Entry | 5ndj |
| Reference | Prokhorova Irina, Altman Roger B., Djumagulov Muminjon, Shrestha Jaya P., Urzhumtsev Alexandre, Ferguson Angelica, Chang Cheng-Wei Tom, Yusupov Marat, Blanchard Scott C., Yusupova Gulnara. . Aminoglycoside interactions and impacts on the eukaryotic ribosome Proceedings of the National Academy of Sciences |
| Compound | 8UZ |
| Residue | . / 2201 |
| Chain | ED / 13 |
| Non-redundant | False |
| Interacting RNA chains | A/13 |
| Volume | 287.43 Å3 |
| Hydrophobicity | 0.190 |
| Hydrophilicity | 1.073 |
| Buriedness | 0.694 |
| Don/acc character | 1.037 |
| SiteScore | 0.920 |
| D Score | 0.907 |
| Compound | 8UZ |
| Residue | . / 2201 |
| Chain | DL / 1G |
| Non-redundant | False |
| Interacting RNA chains | J/1G |
| Volume | 233.58 Å3 |
| Hydrophobicity | 0.089 |
| Hydrophilicity | 1.192 |
| Buriedness | 0.703 |
| Don/acc character | 1.361 |
| SiteScore | 0.828 |
| D Score | 0.749 |
| Compound | 8UZ |
| Residue | . / 3002 |
| Chain | WS / 1H |
| Non-redundant | True |
| Interacting RNA chains | T/1H |
| Volume | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Compound | 8UZ |
| Residue | . / 3003 |
| Chain | XS / 1H |
| Non-redundant | True |
| Interacting RNA chains | T/1H |
| Volume | 193.79 Å3 |
| Hydrophobicity | 0.290 |
| Hydrophilicity | 1.461 |
| Buriedness | 0.744 |
| Don/acc character | 1.894 |
| SiteScore | 0.719 |
| D Score | 0.510 |
| Compound | 8UZ |
| Residue | . / 3004 |
| Chain | YS / 1H |
| Non-redundant | True |
| Interacting RNA chains | T/1H |
| Volume | 81.29 Å3 |
| Hydrophobicity | 0.061 |
| Hydrophilicity | 1.014 |
| Buriedness | 0.658 |
| Don/acc character | 0.971 |
| SiteScore | 0.547 |
| D Score | 0.451 |
| Compound | 8UZ |
| Residue | . / 3005 |
| Chain | ZS / 1H |
| Non-redundant | False |
| Interacting RNA chains | T/1H |
| Volume | 171.50 Å3 |
| Hydrophobicity | 0.120 |
| Hydrophilicity | 1.177 |
| Buriedness | 0.584 |
| Don/acc character | 1.211 |
| SiteScore | 0.924 |
| D Score | 0.907 |
| Compound | 8UZ |
| Residue | . / 3002 |
| Chain | PSA / 14 |
| Non-redundant | False |
| Interacting RNA chains | EA/14 |
| Volume | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Compound | 8UZ |
| Residue | . / 3003 |
| Chain | QSA / 14 |
| Non-redundant | False |
| Interacting RNA chains | EA/14 |
| Volume | 210.26 Å3 |
| Hydrophobicity | 0.323 |
| Hydrophilicity | 1.244 |
| Buriedness | 0.711 |
| Don/acc character | 1.556 |
| SiteScore | 0.745 |
| D Score | 0.623 |
| Compound | 8UZ |
| Residue | . / 3004 |
| Chain | RSA / 14 |
| Non-redundant | False |
| Interacting RNA chains | EA/14 |
| Volume | 66.54 Å3 |
| Hydrophobicity | 0.206 |
| Hydrophilicity | 0.929 |
| Buriedness | 0.634 |
| Don/acc character | 1.354 |
| SiteScore | 0.597 |
| D Score | 0.529 |
| Compound | 8UZ |
| Residue | . / 3005 |
| Chain | SSA / 14 |
| Non-redundant | True |
| Interacting RNA chains | EA/14 |
| Volume | 172.87 Å3 |
| Hydrophobicity | 0.099 |
| Hydrophilicity | 1.326 |
| Buriedness | 0.620 |
| Don/acc character | 1.119 |
| SiteScore | 0.902 |
| D Score | 0.821 |