Complex 8ifb
System information
Experimental technique | Electron Microscopy |
Experimental resolution | 2.43 |
System mass | 2211.26 kDa |
Deposition year | 2023 |
Molecule type | RNA/Protein |
# RNA entities | 6 |
Organism | Escherichia |
RCSB PDB Entry | 8ifb |
Reference | Tomono Junta, Asano Kosuke, Chiashi Takuma, Suzuki Masato, Igarashi Masayuki, Takahashi Yoshiaki, Tanaka Yoshikazu, Yokoyama Takeshi. . Direct visualization of ribosomes in the cell-free system revealed the functional evolution of aminoglycoside The Journal of Biochemistry |
Compound | 84D |
Residue | . / 1738 |
Chain | KG / A |
Non-redundant | True |
Interacting RNA chains | A/A |
Volume | 232.90 Å3 |
Hydrophobicity | 0.094 |
Hydrophilicity | 0.997 |
Buriedness | 0.684 |
Don/acc character | 3.764 |
SiteScore | 0.843 |
D Score | 0.826 |
Compound | 84D |
Residue | . / 1739 |
Chain | LG / A |
Non-redundant | True |
Interacting RNA chains | A/A |
Volume | - |
Hydrophobicity | - |
Hydrophilicity | - |
Buriedness | - |
Don/acc character | - |
SiteScore | - |
D Score | - |
Compound | 84D |
Residue | . / 3255 |
Chain | RQ / a |
Non-redundant | True |
Interacting RNA chains | A/A, V/a |
Volume | 217.46 Å3 |
Hydrophobicity | 0.335 |
Hydrophilicity | 1.050 |
Buriedness | 0.702 |
Don/acc character | 2.654 |
SiteScore | 0.933 |
D Score | 0.930 |
Compound | 84D |
Residue | . / 3256 |
Chain | SQ / a |
Non-redundant | True |
Interacting RNA chains | V/a |
Volume | 89.18 Å3 |
Hydrophobicity | 0.000 |
Hydrophilicity | 0.824 |
Buriedness | 0.650 |
Don/acc character | 4.717 |
SiteScore | 0.440 |
D Score | 0.331 |
Compound | 84D |
Residue | . / 3257 |
Chain | TQ / a |
Non-redundant | True |
Interacting RNA chains | V/a |
Volume | 277.14 Å3 |
Hydrophobicity | 0.000 |
Hydrophilicity | 1.269 |
Buriedness | 0.687 |
Don/acc character | 1.557 |
SiteScore | 0.735 |
D Score | 0.608 |
Compound | 84D |
Residue | . / 3258 |
Chain | UQ / a |
Non-redundant | True |
Interacting RNA chains | V/a |
Volume | 534.39 Å3 |
Hydrophobicity | 0.076 |
Hydrophilicity | 1.026 |
Buriedness | 0.698 |
Don/acc character | 3.597 |
SiteScore | 0.909 |
D Score | 0.904 |
Compound | 84D |
Residue | . / 3260 |
Chain | WQ / a |
Non-redundant | True |
Interacting RNA chains | V/a |
Volume | 644.84 Å3 |
Hydrophobicity | 0.049 |
Hydrophilicity | 1.382 |
Buriedness | 0.729 |
Don/acc character | 1.277 |
SiteScore | 1.021 |
D Score | 0.927 |
Compound | 84D |
Residue | . / 3261 |
Chain | XQ / a |
Non-redundant | True |
Interacting RNA chains | V/a |
Volume | 380.73 Å3 |
Hydrophobicity | 0.092 |
Hydrophilicity | 1.039 |
Buriedness | 0.667 |
Don/acc character | 1.805 |
SiteScore | 0.800 |
D Score | 0.771 |
Compound | 84D |
Residue | . / 3262 |
Chain | YQ / a |
Non-redundant | True |
Interacting RNA chains | V/a |
Volume | 668.16 Å3 |
Hydrophobicity | 0.047 |
Hydrophilicity | 1.086 |
Buriedness | 0.665 |
Don/acc character | 1.734 |
SiteScore | 0.978 |
D Score | 0.985 |
Compound | SPM |
Residue | . / 3180 |
Chain | UN / a |
Non-redundant | False |
Interacting RNA chains | V/a |
Volume | 321.05 Å3 |
Hydrophobicity | 0.210 |
Hydrophilicity | 1.237 |
Buriedness | 0.755 |
Don/acc character | 1.180 |
SiteScore | 0.878 |
D Score | 0.784 |