› 8dap

X-ray diffraction
6.47Å resolution

[GA/TC] Self-Assembled 3D DNA Tensegrity Triangle with 24 bp Arm Length forming a Trigonal Hexagon

Released:
DOI: 10.2210/pdb8dap/pdb
PDB entry 8dap coloured by chain, front view.
PDB entry 8dap coloured by chain, side view.
PDB entry 8dap coloured by chain, top view.
Source organism: synthetic construct
Primary publication:
Highly Symmetric, Self-Assembling 3D DNA Crystals with Cubic and Trigonal Lattices.
Lu B, Vecchioni S, Ohayon YP, Woloszyn K, Markus T, Mao C, Seeman NC, Canary JW, Sha R
Small 19 e2205830 (2023)
PMID: 36408817

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero heptamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-122498 (preferred)
Entry contents:
3 distinct DNA molecules
Macromolecules (3 distinct):
DNA (5'-D(*GP*AP*GP*CP*CP*TP*AP*CP*CP*CP*TP*GP*TP*AP*CP*GP*GP*AP*CP*AP*TP*CP*AP*G)-3') Chains: A, E, I
Molecule details ›
Chains: A, E, I
Length: 24 nucleotides
Theoretical weight: 7.34 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(*TP*CP*CP*TP*GP*AP*TP*GP*TP*GP*GP*CP*TP*AP*GP*GP*C)-3') Chains: C, D, H
Molecule details ›
Chains: C, D, H
Length: 17 nucleotides
Theoretical weight: 5.23 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*TP*AP*CP*AP*CP*CP*GP*TP*AP*CP*AP*CP*CP*GP*TP*AP*CP*AP*CP*CP*G)-3') Chain: B
Molecule details ›
Chain: B
Length: 21 nucleotides
Theoretical weight: 6.34 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: APS BEAMLINE 17-ID
Spacegroup: P3221
Unit cell:
a: 166.609Å b: 166.609Å c: 119.318Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.142 0.14 0.173
Expression system: Not provided

Quick links

Citations

1 review citation

Recent Advances in DNA Nanotechnology-Enabled Biosensors for Virus Detection.
Yuwen et al. (2023)