› 3bm0

X-ray diffraction
1.8Å resolution

Structure of DNA Octamer G(dUSe)G(5-SedU)ACAC

Released:
DOI: 10.2210/pdb3bm0/pdb
PDB entry 3bm0 coloured by chain, front view.
PDB entry 3bm0 coloured by chain, side view.
PDB entry 3bm0 coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Synthesis and crystallographic analysis of 5-Se-thymidine DNAs.
Hassan AE, Sheng J, Jiang J, Zhang W, Huang Z
Org Lett 11 2503-6 (2009)
PMID: 19469515

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-116096 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
5'-D(*GP*(2'-Se-U)P*GP*(5-Se-U)P*AP*CP*AP*C)-3' Chain: A
Molecule details ›
Chain: A
Length: 8 nucleotides
Theoretical weight: 2.58 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
2 modified residues:
Ligand UMS 1 x UMS
Ligand T5S 1 x T5S

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X12C
Spacegroup: P43212
Unit cell:
a: 42.087Å b: 42.087Å c: 23.772Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.22 0.21 0.226
Expression system: Not provided

Quick links

Citations

3 review citations

Nucleic acid X-ray crystallography via direct selenium derivatization.
Lin et al. (2011)
2 more

1 mention without citation

Hydrogen bond formation between the naturally modified nucleobase and phosphate backbone.
Sheng et al. (2012)