› 5eos

X-ray diffraction
4.7Å resolution

Crystallizing Strained DNA: Self-Assembly of 3D Crystals Containing a Torsionally-Stressed Component

Released:
DOI: 10.2210/pdb5eos/pdb
PDB entry 5eos coloured by chain, front view.
PDB entry 5eos coloured by chain, side view.
PDB entry 5eos coloured by chain, top view.
Source organism: synthetic construct
Primary publication:
Self-Assembly of 3D DNA Crystals Containing a Torsionally Stressed Component.
Hernandez C, Birktoft JJ, Ohayon YP, Chandrasekaran AR, Abdallah H, Sha R, Stojanoff V, Mao C, Seeman NC
Cell Chem Biol 24 1401-1406.e2 (2017)
PMID: 28988948

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dodecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118641 (preferred)
Entry contents:
4 distinct DNA molecules
Macromolecules (4 distinct):
DNA (5'-D(P*GP*AP*GP*CP*AP*GP*CP*TP*GP*TP*G)-3') Chain: A
Molecule details ›
Chain: A
Length: 11 nucleotides
Theoretical weight: 3.41 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*CP*AP*CP*AP*CP*CP*GP*T)-3') Chain: D
Molecule details ›
Chain: D
Length: 8 nucleotides
Theoretical weight: 2.37 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(*TP*CP*TP*GP*AP*TP*GP*TP*GP*CP*TP*GP*C)-3') Chain: B
Molecule details ›
Chain: B
Length: 13 nucleotides
Theoretical weight: 3.97 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*AP*CP*GP*GP*AP*CP*AP*TP*CP*A)-3') Chain: C
Molecule details ›
Chain: C
Length: 10 nucleotides
Theoretical weight: 3.04 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: NSLS BEAMLINE X25
Spacegroup: R3
Unit cell:
a: 110.011Å b: 110.011Å c: 83.734Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.192 0.19 0.21
Expression system: Not provided

Quick links

Citations

5 review citations

Nuclease resistance of DNA nanostructures.
Chandrasekaran AR. (2021)
4 more

2 mentions without citation

Sequence-dependent response of DNA to torsional stress: a potential biological regulation mechanism.
Reymer et al. (2018)
1 more