› 3c3z

X-ray diffraction
1.5Å resolution

Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to ribostamycin

Released:
DOI: 10.2210/pdb3c3z/pdb
PDB entry 3c3z coloured by chain, front view.
PDB entry 3c3z coloured by chain, side view.
PDB entry 3c3z 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-113117 (preferred)
Entry contents:
1 distinct DNA/RNA hybrid molecule
Macromolecule:
HIV-1 subtype F genomic RNA Chains: A, B
Molecule details ›
Chains: A, B
Length: 23 nucleotides
Theoretical weight: 7.46 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand RIO 2 x RIO
1 modified residue:
Ligand UMS 2 x UMS

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: C2
Unit cell:
a: 99.67Å b: 30.53Å c: 57.68Å
α: 90° β: 121.31° γ: 90°
R-values:
R R work R free
0.221 0.221 0.227
Expression system: Not provided

Quick links

Citations

7 review citations

Trendspotting in the Protein Data Bank.
Berman et al. (2013)
6 more

3 mentions without citation

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