› 421d

X-ray diffraction
1.8Å resolution

5'-D(*TP*TP*CP*TP*TP*(BRO)CP*TP*TP*C)-3', 5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*A)-3'

Released:
DOI: 10.2210/pdb421d/pdb
PDB entry 421d coloured by chain, front view.
PDB entry 421d coloured by chain, side view.
PDB entry 421d coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Crystal structure and conformation of a DNA-RNA hybrid duplex with a polypurine RNA strand: d(TTCTTBr5CTTC)-r(GAAGAAGAA).
Xiong Y, Sundaralingam M
Structure 6 1493-501 (1998)
PMID: 9862803

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
PDBe Complex ID:
PDB-CPX-117137 (preferred)
Entry contents:
1 distinct DNA molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
DNA (5'-D(*TP*TP*CP*TP*TP*(CBR)P*TP*TP*C)-3') Chain: A
Molecule details ›
Chain: A
Length: 9 nucleotides
Theoretical weight: 2.73 KDa
Source organism: Synthetic construct
Expression system: Not provided
RNA (5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*A)-3') Chain: B
Molecule details ›
Chain: B
Length: 9 nucleotides
Theoretical weight: 2.97 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand CBR 1 x CBR

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P61
Unit cell:
a: 48.08Å b: 48.08Å c: 42.88Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.201 0.201 0.237
Expression system: Not provided

Quick links

Citations

1 review citation

Understanding B-DNA to A-DNA transition in the right-handed DNA helix: Perspective from a local to global transition.
Kulkarni et al. (2017)
18 other articles

1 mention without citation

Copula based prediction models: an application to an aortic regurgitation study.
Kumar et al. (2007)