› 1pjo

X-ray diffraction
1.1Å resolution

Crystal Structure of an RNA/DNA hybrid of HIV-1 PPT

Released:
DOI: 10.2210/pdb1pjo/pdb
PDB entry 1pjo coloured by chain, front view.
PDB entry 1pjo coloured by chain, side view.
PDB entry 1pjo coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
An unusual sugar conformation in the structure of an RNA/DNA decamer of the polypurine tract may affect recognition by RNase H.
Kopka ML, Lavelle L, Han GW, Ng HL, Dickerson RE
J Mol Biol 334 653-65 (2003)
PMID: 14636594

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-114393 (preferred)
Entry contents:
1 distinct DNA molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
5'-D(*CP*TP*TP*TP*TP*CP*TP*TP*TP*G)-3' Chain: B
Molecule details ›
Chain: B
Length: 10 nucleotides
Theoretical weight: 2.99 KDa
Source organism: Synthetic construct
Expression system: Not provided
5'-R(*CP*AP*AP*AP*GP*AP*AP*AP*AP*G)-3' Chain: A
Molecule details ›
Chain: A
Length: 10 nucleotides
Theoretical weight: 3.26 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 6 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X8C
Spacegroup: P212121
Unit cell:
a: 25.595Å b: 40.755Å c: 45.74Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.117 0.117 0.156
Expression system: Not provided

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Citations

3 review citations

RNase H activity: structure, specificity, and function in reverse transcription.
Schultz et al. (2008)
2 more