› 6zrl

X-ray diffraction
1.53Å resolution

Racemic compound of RNA duplexes.

Released:
DOI: 10.2210/pdb6zrl/pdb
PDB entry 6zrl coloured by chain, front view.
PDB entry 6zrl coloured by chain, side view.
PDB entry 6zrl coloured by chain, top view.
Source organism: Thermus thermophilus
Primary publication:
Broken symmetry between RNA enantiomers in a crystal lattice.
Kiliszek A, Błaszczyk L, Bejger M, Rypniewski W
OpenAccess logo Nucleic Acids Res 49 12535-12539 (2021)
PMID: 34107036

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-222022 (preferred)
Entry contents:
4 distinct RNA molecules
Macromolecules (4 distinct):
RNA (5'-R(*(0C)P*(0U)P*(0G)P*(0G)P*(0G)P*(0C)P*(0G)P*(0G))-3') Chain: K
Molecule details ›
Chain: K
Length: 8 nucleotides
Theoretical weight: 2.6 KDa
Source organism: Thermus thermophilus
Expression system: Not provided
RNA (5'-R(*(0C)P*(0C)P*(0G)P*(0C)P*(0C)P*(0U)P*(0G)P*(0G))-3') Chain: L
Molecule details ›
Chain: L
Length: 8 nucleotides
Theoretical weight: 2.52 KDa
Source organism: Thermus thermophilus
Expression system: Not provided
RNA (5'-R(*CP*UP*GP*GP*GP*CP*GP*G)-3') Chain: M
Molecule details ›
Chain: M
Length: 8 nucleotides
Theoretical weight: 2.6 KDa
Source organism: Thermus thermophilus
Expression system: Not provided
RNA (5'-R(*CP*CP*GP*CP*CP*UP*GP*G)-3') Chain: N
Molecule details ›
Chain: N
Length: 8 nucleotides
Theoretical weight: 2.52 KDa
Source organism: Thermus thermophilus
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand ZN 7 x ZN
3 modified residues:
Ligand 0C 6 x 0C
Ligand 0U 2 x 0U
Ligand 0G 8 x 0G

Experiments and Validation Details

Entry percentile scores
X-ray source: PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1)
Spacegroup: P1
Unit cell:
a: 21.01Å b: 26.47Å c: 38.75Å
α: 105.801° β: 96.705° γ: 91.892°
R-values:
R R work R free
0.217 0.213 0.275
Expression system: Not provided

Quick links

Citations

1 review citation

Biological Catalysis and Information Storage Have Relied on N-Glycosyl Derivatives of β-D-Ribofuranose since the Origins of Life.
Wozniak et al. (2023)

1 mention without citation

Broken symmetry between RNA enantiomers in a crystal lattice.
Kiliszek et al. (2021)