› 8dx6

X-ray diffraction
5.34Å resolution

[C:Hg2+/Ag+:C--pH 5.5] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution

Released:
DOI: 10.2210/pdb8dx6/pdb
Model geometry
Fit model/data
PDB entry 8dx6 coloured by chain, front view.
PDB entry 8dx6 coloured by chain, side view.
PDB entry 8dx6 coloured by chain, top view.
Source organism: synthetic construct
Primary publication:
Heterobimetallic Base Pair Programming in Designer 3D DNA Crystals.
Lu B, Ohayon YP, Woloszyn K, Yang CF, Yoder JB, Rothschild LJ, Wind SJ, Hendrickson WA, Mao C, Seeman NC, Canary JW, Sha R, Vecchioni S
J Am Chem Soc (2023)
PMID: 37530628

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-222886 (preferred)
Entry contents:
4 distinct DNA molecules
Macromolecules (4 distinct):
DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*CP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3') Chain: A
Molecule details ›
Chain: A
Length: 21 nucleotides
Theoretical weight: 6.45 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*CP*CP*AP*CP*AP*CP*A)-3') Chain: B
Molecule details ›
Chain: B
Length: 7 nucleotides
Theoretical weight: 2.05 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*GP*GP*CP*TP*GP*CP*T)-3') Chain: C
DNA (5'-D(P*CP*TP*GP*AP*TP*GP*T)-3') Chain: D

Ligands and Environments

1 bound ligand:
Ligand AG 1 x AG
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: APS BEAMLINE 17-ID
Spacegroup: R3
Unit cell:
a: 107.801Å b: 107.801Å c: 90.309Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.196 0.194 0.261
Expression system: Not provided

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