› 4p20

X-ray diffraction
2.7Å resolution

Crystal structures of the bacterial ribosomal decoding site complexed with amikacin

Released:
DOI: 10.2210/pdb4p20/pdb
PDB entry 4p20 coloured by chain, front view.
PDB entry 4p20 coloured by chain, side view.
PDB entry 4p20 coloured by chain, top view.
Source organism: synthetic construct
Primary publication:
Crystal structure of the bacterial ribosomal decoding site complexed with amikacin containing the gamma-amino-alpha-hydroxybutyryl (haba) group.
Kondo J, François B, Russell RJ, Murray JB, Westhof E
Biochimie 88 1027-31 (2006)
PMID: 16806634

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-196847 (preferred)
Entry contents:
1 distinct RNA molecule
Macromolecule:
5'-R(*UP*UP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*C)-3' Chains: A, B
Molecule details ›
Chains: A, B
Length: 23 nucleotides
Theoretical weight: 7.36 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand AKN 2 x AKN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P21
Unit cell:
a: 47.55Å b: 32.82Å c: 52.66Å
α: 90° β: 108.71° γ: 90°
R-values:
R R work R free
0.213 0.213 0.268
Expression system: Not provided

Quick links

Citations

7 review citations

The future of aminoglycosides: the end or renaissance?
Houghton et al. (2010)
6 more

3 mentions without citation

Recent Advances in Developing Small Molecules Targeting Nucleic Acid.
Wang et al. (2016)
2 more