› 3knc

X-ray diffraction
2.5Å resolution

Crystal structure of the CeNA-RNA hybrid octamer ce(GCGTAGCG):r(CGCUACGC)

Released:
DOI: 10.2210/pdb3knc/pdb
PDB entry 3knc coloured by chain, front view.
PDB entry 3knc coloured by chain, side view.
PDB entry 3knc coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
The crystal structure of the CeNA:RNA hybrid ce(GCGTAGCG):r(CGCUACGC).
Ovaere M, Herdewijn P, Van Meervelt L
Chemistry 17 7823-30 (2011)
PMID: 21618623

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
PDBe Complex ID:
PDB-CPX-116493 (preferred)
Entry contents:
1 distinct DNA molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
5'-D(*(XGR)P*(XCR)P*(XGR)P*(XTR)P*(XAR)P*(XGR)P*(XCR)P*(XGR)P*(XGR))-3' Chain: A
Molecule details ›
Chain: A
Length: 9 nucleotides
Theoretical weight: 2.89 KDa
Source organism: Synthetic construct
Expression system: Not provided
5'-R(*CP*GP*CP*UP*AP*CP*GP*C)-3' Chain: B
Molecule details ›
Chain: B
Length: 8 nucleotides
Theoretical weight: 2.5 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 2 x MG
3 modified residues:
Ligand XGR 5 x XGR
Ligand XCR 2 x XCR
Ligand XTR 1 x XTR

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: P3221
Unit cell:
a: 41.919Å b: 41.919Å c: 68.444Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.187 0.184 0.232
Expression system: Not provided

Quick links

Citations

2 review citations

Current Development of siRNA Bioconjugates: From Research to the Clinic.
Chernikov et al. (2019)
1 more

1 mention without citation

The structural diversity of artificial genetic polymers.
Anosova et al. (2016)