Complex 5ndv
System information
| Experimental technique | X-ray |
| Experimental resolution | 3.30 |
| System mass | 6227.43 kDa |
| Deposition year | 2017 |
| Molecule type | RNA/Protein |
| # RNA entities | 3 |
| Organism | Saccharomyces |
| RCSB PDB Entry | 5ndv |
| 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 | PAR |
| Residue | . / 3401 |
| Chain | AF / 1 |
| Non-redundant | True |
| Interacting RNA chains | A/1 |
| Volume | 208.20 Å3 |
| Hydrophobicity | 0.256 |
| Hydrophilicity | 1.227 |
| Buriedness | 0.743 |
| Don/acc character | 1.202 |
| SiteScore | 0.850 |
| D Score | 0.755 |
| Compound | PAR |
| Residue | . / 3406 |
| Chain | FF / 1 |
| Non-redundant | True |
| Interacting RNA chains | A/1 |
| Volume | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Compound | PAR |
| Residue | . / 3423 |
| Chain | WF / 1 |
| Non-redundant | True |
| Interacting RNA chains | A/1 |
| Volume | 894.20 Å3 |
| Hydrophobicity | 0.186 |
| Hydrophilicity | 1.187 |
| Buriedness | 0.717 |
| Don/acc character | 0.950 |
| SiteScore | 1.013 |
| D Score | 0.983 |
| Compound | PAR |
| Residue | . / 3432 |
| Chain | FG / 1 |
| Non-redundant | True |
| Interacting RNA chains | A/1 |
| Volume | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Compound | PAR |
| Residue | . / 3434 |
| Chain | HG / 1 |
| Non-redundant | True |
| Interacting RNA chains | A/1 |
| Volume | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Compound | PAR |
| Residue | . / 202 |
| Chain | MKA / 4 |
| Non-redundant | True |
| Interacting RNA chains | C/4 |
| Volume | 209.92 Å3 |
| Hydrophobicity | 0.151 |
| Hydrophilicity | 1.060 |
| Buriedness | 0.668 |
| Don/acc character | 0.751 |
| SiteScore | 0.815 |
| D Score | 0.783 |
| Compound | PAR |
| Residue | . / 1901 |
| Chain | VPA / 2 |
| Non-redundant | True |
| Interacting RNA chains | SA/2 |
| Volume | 334.42 Å3 |
| Hydrophobicity | 0.337 |
| Hydrophilicity | 1.139 |
| Buriedness | 0.710 |
| Don/acc character | 0.944 |
| SiteScore | 1.008 |
| D Score | 0.995 |
| Compound | PAR |
| Residue | . / 3402 |
| Chain | TYA / 5 |
| Non-redundant | True |
| Interacting RNA chains | AC/5 |
| Volume | 377.30 Å3 |
| Hydrophobicity | 0.476 |
| Hydrophilicity | 0.854 |
| Buriedness | 0.662 |
| Don/acc character | 1.035 |
| SiteScore | 1.012 |
| D Score | 1.059 |
| Compound | PAR |
| Residue | . / 3405 |
| Chain | WYA / 5 |
| Non-redundant | True |
| Interacting RNA chains | AC/5 |
| Volume | 245.59 Å3 |
| Hydrophobicity | 0.184 |
| Hydrophilicity | 1.422 |
| Buriedness | 0.736 |
| Don/acc character | 0.842 |
| SiteScore | 0.855 |
| D Score | 0.700 |
| Compound | PAR |
| Residue | . / 3419 |
| Chain | KZA / 5 |
| Non-redundant | True |
| Interacting RNA chains | AC/5 |
| Volume | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Compound | PAR |
| Residue | . / 3426 |
| Chain | RZA / 5 |
| Non-redundant | True |
| Interacting RNA chains | AC/5 |
| Volume | 229.81 Å3 |
| Hydrophobicity | 0.245 |
| Hydrophilicity | 1.188 |
| Buriedness | 0.672 |
| Don/acc character | 0.931 |
| SiteScore | 0.917 |
| D Score | 0.872 |
| Compound | PAR |
| Residue | . / 3428 |
| Chain | TZA / 5 |
| Non-redundant | True |
| Interacting RNA chains | AC/5 |
| Volume | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Compound | PAR |
| Residue | . / 1903 |
| Chain | TFC / 6 |
| Non-redundant | True |
| Interacting RNA chains | SD/6 |
| Volume | 1146.99 Å3 |
| Hydrophobicity | 0.083 |
| Hydrophilicity | 1.311 |
| Buriedness | 0.723 |
| Don/acc character | 1.025 |
| SiteScore | 1.017 |
| D Score | 0.947 |