› 2d17

Solution NMR

Solution RNA structure of stem-bulge-stem region of the HIV-1 dimerization initiation site

Released:
DOI: 10.2210/pdb2d17/pdb
PDB entry 2d17 coloured by chain, ensemble of 11 models, front view.
PDB entry 2d17 coloured by chain, ensemble of 11 models, side view.
PDB entry 2d17 coloured by chain, ensemble of 11 models, top view.
Source organism: Synthetic construct
Primary publication:
Solution RNA structures of the HIV-1 dimerization initiation site in the kissing-loop and extended-duplex dimers.
Baba S, Takahashi K, Noguchi S, Takaku H, Koyanagi Y, Yamamoto N, Kawai G
J Biochem 138 583-92 (2005)
PMID: 16272570

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-196327 (preferred)
Entry contents:
2 distinct RNA molecules
Macromolecules (2 distinct):
5'-R(*CP*GP*GP*CP*AP*AP*GP*AP*GP*GP*CP*GP*AP*CP*CP*C)-3' Chain: A
Molecule details ›
Chain: A
Length: 16 nucleotides
Theoretical weight: 5.17 KDa
Source organism: Synthetic construct
Expression system: Not provided
5'-R(*GP*GP*GP*UP*CP*GP*GP*CP*UP*UP*GP*CP*UP*G)-3' Chain: B
Molecule details ›
Chain: B
Length: 14 nucleotides
Theoretical weight: 4.51 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Refinement method: simulated annealing
Expression system: Not provided

Quick links

Citations

5 review citations

RNA Structural Dynamics As Captured by Molecular Simulations: A Comprehensive Overview.
Šponer et al. (2018)
4 more

4 mentions without citation

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