› 4k31

X-ray diffraction
1.42Å resolution

Crystal structure of apramycin bound to the leishmanial rRNA A-site

Released:
DOI: 10.2210/pdb4k31/pdb
PDB entry 4k31 coloured by chain, front view.
PDB entry 4k31 coloured by chain, side view.
PDB entry 4k31 coloured by chain, top view.
Source organism: Leishmania
Primary publication:
Identification of the molecular attributes required for aminoglycoside activity against Leishmania.
Shalev M, Kondo J, Kopelyanskiy D, Jaffe CL, Adir N, Baasov T
Proc Natl Acad Sci U S A 110 13333-8 (2013)
PMID: 23898171

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-196826 (preferred)
Entry contents:
1 distinct RNA molecule
Macromolecule:
RNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*GP*UP*UP*CP*CP*GP*GP*AP*AP*AP*AP*GP*UP*CP*GP*C)-3') Chains: B, C
Molecule details ›
Chains: B, C
Length: 23 nucleotides
Theoretical weight: 7.36 KDa
Source organism: Leishmania
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand AM2 4 x AM2
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P31
Unit cell:
a: 32.79Å b: 32.79Å c: 107.4Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.228 0.226 0.264
Expression system: Not provided

Quick links

Citations

5 review citations

Recent developments in drug discovery for leishmaniasis and human African trypanosomiasis.
Nagle et al. (2014)
4 more

3 mentions without citation

Atomic resolution snapshot of Leishmania ribosome inhibition by the aminoglycoside paromomycin.
Shalev-Benami et al. (2017)
2 more