› 3v1r

X-ray diffraction
2.8Å resolution

Crystal structures of the reverse transcriptase-associated ribonuclease H domain of XMRV with inhibitor beta-thujaplicinol

Released:
DOI: 10.2210/pdb3v1r/pdb
PDB entry 3v1r coloured by chain, front view.
PDB entry 3v1r coloured by chain, side view.
PDB entry 3v1r coloured by chain, top view.
Source organism: Xenotropic MuLV-related virus VP35
Primary publication:
Crystal structures of the reverse transcriptase-associated ribonuclease H domain of xenotropic murine leukemia-virus related virus.
Zhou D, Chung S, Miller M, Grice SF, Wlodawer A
J Struct Biol 177 638-45 (2012)
PMID: 22366278

Function and Biology Details

Reactions catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Endonucleolytic cleavage to 5'-phosphomonoester.
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-173388 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Reverse transcriptase/ribonuclease H p80 Chain: A
Molecule details ›
Chain: A
Length: 180 amino acids
Theoretical weight: 19.87 KDa
Source organism: Xenotropic MuLV-related virus VP35
Expression system: Escherichia coli
UniProt:
  • Canonical: Q2F7J3 (Residues: 1154-1328; Coverage: 10%)
Gene name: gag-pol
Sequence domains: RNase H
Structure domains: Ribonuclease H-like superfamily/Ribonuclease H

Ligands and Environments

4 bound ligands:
Ligand SO4 4 x SO4
Ligand MRD 1 x MRD
Ligand MN 2 x MN
Ligand JTH 1 x JTH
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: C2221
Unit cell:
a: 53.677Å b: 84.75Å c: 70.817Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.206 0.195 0.277
Expression system: Escherichia coli

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Citations

2 review citations

Using the Hepatitis C Virus RNA-Dependent RNA Polymerase as a Model to Understand Viral Polymerase Structure, Function and Dynamics.
Sesmero et al. (2015)
1 more

1 mention without citation

Crystal structures of the reverse transcriptase-associated ribonuclease H domain of xenotropic murine leukemia-virus related virus.
Zhou et al. (2012)