› 462d

X-ray diffraction
2.3Å resolution

CRYSTAL STRUCTURE OF THE HIV-1 GENOMIC RNA DIMERIZATION INITIATION SITE

Released:
DOI: 10.2210/pdb462d/pdb
PDB entry 462d coloured by chain, front view.
PDB entry 462d coloured by chain, side view.
PDB entry 462d coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
The crystal structure of the dimerization initiation site of genomic HIV-1 RNA reveals an extended duplex with two adenine bulges.
Ennifar E, Yusupov M, Walter P, Marquet R, Ehresmann B, Ehresmann C, Dumas P
Structure 7 1439-49 (1999)
PMID: 10574792

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-196773 (preferred)
Entry contents:
1 distinct RNA molecule
Macromolecule:
RNA (5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G) -3') Chains: A, B
Molecule details ›
Chains: A, B
Length: 23 nucleotides
Theoretical weight: 7.4 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 8 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE D2AM, ENRAF-NONIUS FR591
Spacegroup: P3121
Unit cell:
a: 59.1Å b: 59.1Å c: 64Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.211 0.211 0.212
Expression system: Not provided

Quick links

Citations

13 review citations

Ions and RNA folding.
Draper et al. (2005)
12 more

7 mentions without citation

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