› 4k4v

X-ray diffraction
2.63Å resolution

Poliovirus polymerase elongation complex (r5+1_form)

Released:
DOI: 10.2210/pdb4k4v/pdb
PDB entry 4k4v coloured by chain, front view.
PDB entry 4k4v coloured by chain, side view.
PDB entry 4k4v coloured by chain, top view.
Source organism: Human poliovirus 1 Mahoney
Primary publication:
Structures of coxsackievirus, rhinovirus, and poliovirus polymerase elongation complexes solved by engineering RNA mediated crystal contacts.
Gong P, Kortus MG, Nix JC, Davis RE, Peersen OB
PLoS One 8 e60272 (2013)
PMID: 23667424

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 analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-113150 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
1 distinct DNA/RNA hybrid molecule
Macromolecules (3 distinct):
RNA-directed RNA polymerase Chains: A, E
Molecule details ›
Chains: A, E
Length: 471 amino acids
Theoretical weight: 53.79 KDa
Source organism: Human poliovirus 1 Mahoney
Expression system: Escherichia coli
UniProt:
  • Canonical: P03300 (Residues: 1749-2209; Coverage: 21%)
Sequence domains: Viral RNA-dependent RNA polymerase
Structure domains:
RNA (5'-R(*AP*AP*GP*UP*CP*UP*CP*CP*AP*GP*GP*UP*CP*UP*CP*UP*CP*UP*CP*GP*UP*CP*GP*AP*AP*A)-3') Chains: B, F
Molecule details ›
Chains: B, F
Length: 26 nucleotides
Theoretical weight: 8.24 KDa
Source organism: Human poliovirus 1 Mahoney
Expression system: Not provided
DNA/RNA (5'-R(*UP*GP*UP*UP*CP*GP*AP*CP*GP*AP*GP*AP*GP*AP*GP*A)-D(P*C)-3') Chains: C, G
Molecule details ›
Chains: C, G
Length: 17 nucleotides
Theoretical weight: 5.49 KDa
Source organism: Human poliovirus 1 Mahoney
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 4.2.2
Spacegroup: P1
Unit cell:
a: 63.519Å b: 63.475Å c: 101.946Å
α: 73.48° β: 73.44° γ: 73.64°
R-values:
R R work R free
0.235 0.233 0.273
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

10 review citations

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

2 mentions without citation

Visualizing the Nucleotide Addition Cycle of Viral RNA-Dependent RNA Polymerase.
Wu et al. (2018)
1 more