› 4dy8

X-ray diffraction
1.76Å resolution

Interactions of Mn2+ with a non-self-complementary Z-type DNA duplex

Released:
DOI: 10.2210/pdb4dy8/pdb
PDB entry 4dy8 coloured by chain, front view.
PDB entry 4dy8 coloured by chain, side view.
PDB entry 4dy8 coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Interactions of Mn2+ with a non-self-complementary Z-type DNA duplex.
Mandal PK, Venkadesh S, Gautham N
Acta Crystallogr Sect F Struct Biol Cryst Commun 68 1420-6 (2012)
PMID: 23192018

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero dimer (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-117366 (preferred)
Entry contents:
3 distinct DNA molecules
Macromolecules (3 distinct):
DNA (5'-D(*CP*AP*CP*GP*CP*G)-3') Chain: A
Molecule details ›
Chain: A
Length: 6 nucleotides
Theoretical weight: 1.79 KDa
Source organism: Synthetic construct
Expression system: Not provided
DNA (5'-D(*CP*GP*CP*GP*TP*G)-3') Chain: B
Molecule details ›
Chain: B
Length: 6 nucleotides
Theoretical weight: 1.83 KDa
Source organism: Synthetic construct
Expression system: Not provided
DNA (5'-D(P*TP*G)-3') Chains: C, D
Molecule details ›
Chains: C, D
Length: 2 nucleotides
Theoretical weight: 588 Da
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: BRUKER AXS MICROSTAR
Spacegroup: P65
Unit cell:
a: 35.213Å b: 35.213Å c: 44.452Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.227 0.225 0.262
Expression system: Not provided

Quick links

Citations

2 mentions without citation

Four highly pseudosymmetric and/or twinned structures of d(CGCGCG)2 extend the repertoire of crystal structures of Z-DNA.
Luo et al. (2017)
1 more