Complex 5ndw
System information
Experimental technique | X-ray |
Experimental resolution | 3.70 |
System mass | 6188.11 kDa |
Deposition year | 2017 |
Molecule type | RNA/Protein |
# RNA entities | 3 |
Organism | Saccharomyces |
RCSB PDB Entry | 5ndw |
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 | . / 3887 |
Chain | UX / 1 |
Non-redundant | True |
Interacting RNA chains | A/1 |
Volume | 160.52 Å3 |
Hydrophobicity | 0.081 |
Hydrophilicity | 0.989 |
Buriedness | 0.663 |
Don/acc character | 1.906 |
SiteScore | 0.547 |
D Score | 0.452 |
Compound | 8UZ |
Residue | . / 3888 |
Chain | VX / 1 |
Non-redundant | True |
Interacting RNA chains | A/1 |
Volume | 43.22 Å3 |
Hydrophobicity | 0.077 |
Hydrophilicity | 0.950 |
Buriedness | 0.620 |
Don/acc character | 1.397 |
SiteScore | 0.440 |
D Score | 0.328 |
Compound | 8UZ |
Residue | . / 3889 |
Chain | WX / 1 |
Non-redundant | True |
Interacting RNA chains | A/1 |
Volume | 125.54 Å3 |
Hydrophobicity | 0.893 |
Hydrophilicity | 1.036 |
Buriedness | 0.745 |
Don/acc character | 0.754 |
SiteScore | 0.791 |
D Score | 0.740 |
Compound | 8UZ |
Residue | . / 3893 |
Chain | AY / 1 |
Non-redundant | True |
Interacting RNA chains | A/1 |
Volume | 417.43 Å3 |
Hydrophobicity | 0.032 |
Hydrophilicity | 1.254 |
Buriedness | 0.718 |
Don/acc character | 5.745 |
SiteScore | 0.928 |
D Score | 0.852 |
Compound | 8UZ |
Residue | . / 3894 |
Chain | BY / 1 |
Non-redundant | True |
Interacting RNA chains | A/1 |
Volume | 691.83 Å3 |
Hydrophobicity | 0.125 |
Hydrophilicity | 1.197 |
Buriedness | 0.715 |
Don/acc character | 1.690 |
SiteScore | 1.011 |
D Score | 0.979 |
Compound | 8UZ |
Residue | . / 2029 |
Chain | BDA / 2 |
Non-redundant | True |
Interacting RNA chains | B/2 |
Volume | 525.82 Å3 |
Hydrophobicity | 0.150 |
Hydrophilicity | 1.104 |
Buriedness | 0.700 |
Don/acc character | 1.764 |
SiteScore | 1.001 |
D Score | 1.000 |
Compound | 8UZ |
Residue | . / 2031 |
Chain | DDA / 2 |
Non-redundant | True |
Interacting RNA chains | B/2 |
Volume | 199.97 Å3 |
Hydrophobicity | 0.055 |
Hydrophilicity | 1.343 |
Buriedness | 0.750 |
Don/acc character | 0.920 |
SiteScore | 0.621 |
D Score | 0.422 |
Compound | 8UZ |
Residue | . / 220 |
Chain | LEA / 4 |
Non-redundant | True |
Interacting RNA chains | D/4, A/1 |
Volume | 705.89 Å3 |
Hydrophobicity | 0.078 |
Hydrophilicity | 1.190 |
Buriedness | 0.692 |
Don/acc character | 1.039 |
SiteScore | 0.996 |
D Score | 0.968 |
Compound | 8UZ |
Residue | . / 3851 |
Chain | UVA / 5 |
Non-redundant | True |
Interacting RNA chains | E/5 |
Volume | 262.39 Å3 |
Hydrophobicity | 0.013 |
Hydrophilicity | 1.139 |
Buriedness | 0.669 |
Don/acc character | 1.387 |
SiteScore | 0.825 |
D Score | 0.770 |
Compound | 8UZ |
Residue | . / 3855 |
Chain | YVA / 5 |
Non-redundant | True |
Interacting RNA chains | E/5 |
Volume | 313.84 Å3 |
Hydrophobicity | 0.109 |
Hydrophilicity | 1.132 |
Buriedness | 0.680 |
Don/acc character | 1.646 |
SiteScore | 0.823 |
D Score | 0.767 |
Compound | 8UZ |
Residue | . / 3857 |
Chain | AWA / 5 |
Non-redundant | True |
Interacting RNA chains | E/5 |
Volume | 49.73 Å3 |
Hydrophobicity | 0.199 |
Hydrophilicity | 1.109 |
Buriedness | 0.579 |
Don/acc character | 2.784 |
SiteScore | 0.471 |
D Score | 0.350 |