› 2gpm

X-ray diffraction
1.4Å resolution

Crystal structure of an RNA racemate

Released:
DOI: 10.2210/pdb2gpm/pdb
PDB entry 2gpm coloured by chain, ensemble of 2 models, front view.
PDB entry 2gpm coloured by chain, ensemble of 2 models, side view.
PDB entry 2gpm coloured by chain, ensemble of 2 models, top view.
Source organism: Synthetic construct
Primary publication:
The first crystal structure of an RNA racemate.
Rypniewski W, Vallazza M, Perbandt M, Klussmann S, Delucas LJ, Betzel C, Erdmann VA
Acta Crystallogr D Biol Crystallogr 62 659-64 (2006)
PMID: 16699193

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-196369 (preferred)
Entry contents:
2 distinct RNA molecules
Macromolecules (2 distinct):
RNA (5'-R(*(0C)P*(0U)P*(0G)P*(0G)P*(0G)P*(0C)P*(0G)P*(0G))-3') Chains: K, M
Molecule details ›
Chains: K, M
Length: 8 nucleotides
Theoretical weight: 2.6 KDa
Source organism: Synthetic construct
Expression system: Not provided
RNA (5'-R(*(0C)P*(0C)P*(0G)P*(0C)P*(0C)P*(0U)P*(0G)P*(0G))-3') Chains: L, N
Molecule details ›
Chains: L, N
Length: 8 nucleotides
Theoretical weight: 2.52 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand CA 6 x CA
3 modified residues:
Ligand 0C 12 x 0C
Ligand 0U 4 x 0U
Ligand 0G 16 x 0G

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X13
Unit cell:
a: 26.338Å b: 38.076Å c: 45.401Å
α: 113.75° β: 99.71° γ: 93.92°
R-values:
R R work R free
0.241 not available 0.27
Expression system: Not provided

Quick links

Citations

3 review citations

Racemic protein crystallography.
Yeates et al. (2012)
2 more

1 mention without citation

phenix.model_vs_data: a high-level tool for the calculation of crystallographic model and data statistics.
Afonine et al. (2010)