› 1dqh

X-ray diffraction
1.7Å resolution

CRYSTAL STRUCTURE OF HELIX II OF THE X. LAEVIS SOMATIC 5S RRNA WITH A CYTOSINE BULGE IN TWO CONFORMATIONS

Released:
DOI: 10.2210/pdb1dqh/pdb
PDB entry 1dqh coloured by chain, front view.
PDB entry 1dqh coloured by chain, side view.
PDB entry 1dqh coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Two crystal forms of helix II of Xenopus laevis 5S rRNA with a cytosine bulge.
Xiong Y, Sundaralingam M
RNA 6 1316-24 (2000)
PMID: 10999608

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-195993 (preferred)
Entry contents:
2 distinct RNA molecules
Macromolecules (2 distinct):
RNA (5'-R(*GP*CP*CP*AP*CP*CP*CP*UP*G)-3') Chain: A
Molecule details ›
Chain: A
Length: 9 nucleotides
Theoretical weight: 2.81 KDa
Source organism: Synthetic construct
Expression system: Not provided
RNA (5'-R(*CP*AP*GP*GP*GP*UP*CP*GP*GP*C)-3') Chain: B
Molecule details ›
Chain: B
Length: 10 nucleotides
Theoretical weight: 3.23 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
X-ray source: RIGAKU RU300
Spacegroup: P43212
Unit cell:
a: 32.78Å b: 32.78Å c: 102.5Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.202 0.202 0.243
Expression system: Not provided

Quick links

Citations

3 review citations

Eukaryotic 5S rRNA biogenesis.
Ciganda et al. (2011)
2 more

3 mentions without citation

Impact of 2'-hydroxyl sampling on the conformational properties of RNA: update of the CHARMM all-atom additive force field for RNA.
Denning et al. (2011)
2 more