HARIBOSS

Harnessing RIBOnucleic acid - Small molecules Structures

Complex 8ifd

System information

Experimental technique Electron Microscopy
Experimental resolution 2.59
System mass 3825.79 kDa
Deposition year 2023
Molecule type RNA/Protein
# RNA entities 3
Organism Homo
RCSB PDB Entry 8ifd
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 . / 5101
Chain CC / 1A
Non-redundant True
Interacting RNA chains A/1A
Volume 235.98 Å3
Hydrophobicity 0.175
Hydrophilicity 0.992
Buriedness 0.655
Don/acc character 1.982
SiteScore 0.834
D Score 0.822

Compound 84D
Residue . / 5107
Chain IC / 1A
Non-redundant True
Interacting RNA chains A/1A
Volume -
Hydrophobicity -
Hydrophilicity -
Buriedness -
Don/acc character -
SiteScore -
D Score -

Compound 84D
Residue . / 5110
Chain LC / 1A
Non-redundant True
Interacting RNA chains A/1A
Volume 1577.46 Å3
Hydrophobicity 0.066
Hydrophilicity 1.322
Buriedness 0.764
Don/acc character 3.168
SiteScore 1.044
D Score 0.968

Compound 84D
Residue . / 5111
Chain MC / 1A
Non-redundant True
Interacting RNA chains A/1A
Volume 822.51 Å3
Hydrophobicity 0.062
Hydrophilicity 1.443
Buriedness 0.759
Don/acc character 1.994
SiteScore 1.041
D Score 0.925

Compound 84D
Residue . / 1901
Chain CO / 2m
Non-redundant True
Interacting RNA chains UA/2m
Volume 135.48 Å3
Hydrophobicity 0.086
Hydrophilicity 0.945
Buriedness 0.644
Don/acc character 2.139
SiteScore 0.533
D Score 0.442