› 1xr6

X-ray diffraction
2.5Å resolution

Crystal Structure of RNA-dependent RNA Polymerase 3D from human rhinovirus serotype 1B

Released:
DOI: 10.2210/pdb1xr6/pdb
PDB entry 1xr6 coloured by chain, front view.
PDB entry 1xr6 coloured by chain, side view.
PDB entry 1xr6 coloured by chain, top view.
Source organism: rhinovirus A1B
Primary publication:
The crystal structure of the RNA-dependent RNA polymerase from human rhinovirus: a dual function target for common cold antiviral therapy.
Love RA, Maegley KA, Yu X, Ferre RA, Lingardo LK, Diehl W, Parge HE, Dragovich PS, Fuhrman SA
Structure 12 1533-44 (2004)
PMID: 15296746

Function and Biology Details

Reactions catalysed: 
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Selective cleavage of Gln-|-Gly bond in the poliovirus polyprotein. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly.
Selective cleavage of Tyr-|-Gly bond in picornavirus polyprotein.
NTP + H(2)O = NDP + phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-146377 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
RNA-directed RNA polymerase Chain: A
Molecule details ›
Chain: A
Length: 460 amino acids
Theoretical weight: 52.37 KDa
Source organism: rhinovirus A1B
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P12916 (Residues: 1698-2157; Coverage: 21%)
Sequence domains: Viral RNA-dependent RNA polymerase
Structure domains:

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.1
Spacegroup: P3221
Unit cell:
a: 88.395Å b: 88.395Å c: 186.198Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.23 0.229 0.263
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

17 review citations

RNA Dependent RNA Polymerases: Insights from Structure, Function and Evolution.
Venkataraman et al. (2018)
16 more

6 mentions without citation

Picornaviral polymerase structure, function, and fidelity modulation.
Peersen OB. (2017)
5 more