› 2qek

X-ray diffraction
1.8Å resolution

HIV-1 subtype F DIS RNA extended duplex form

Released:
DOI: 10.2210/pdb2qek/pdb
PDB entry 2qek coloured by chain, front view.
PDB entry 2qek coloured by chain, side view.
PDB entry 2qek coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Binding of aminoglycoside antibiotics to the duplex form of the HIV-1 genomic RNA dimerization initiation site.
Freisz S, Lang K, Micura R, Dumas P, Ennifar E
Angew Chem Int Ed Engl 47 4110-3 (2008)
PMID: 18435520

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-196570 (preferred)
Entry contents:
1 distinct RNA molecule
Macromolecule:
HIV-1 subtype F DIS genomic RNA Chains: A, B
Molecule details ›
Chains: A, B
Length: 23 nucleotides
Theoretical weight: 7.39 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand K 3 x K
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: P21
Unit cell:
a: 43.773Å b: 37.355Å c: 44.965Å
α: 90° β: 111.24° γ: 90°
R-values:
R R work R free
0.251 0.251 0.265
Expression system: Not provided

Quick links

Citations

7 review citations

Chemical RNA modifications for studies of RNA structure and dynamics.
Wachowius et al. (2010)
6 more

2 mentions without citation

Structural and computational studies of HIV-1 RNA.
Levintov et al. (2024)
1 more