› 2im3

X-ray diffraction
2.6Å resolution

Crystal structure of poliovirus polymerase complexed with UTP and Mn2+

Released:
DOI: 10.2210/pdb2im3/pdb
PDB entry 2im3 coloured by chain, front view.
PDB entry 2im3 coloured by chain, side view.
PDB entry 2im3 coloured by chain, top view.
Source organism: Human poliovirus 1 Mahoney
Primary publication:
Stabilization of poliovirus polymerase by NTP binding and fingers-thumb interactions.
Thompson AA, Albertini RA, Peersen OB
J Mol Biol 366 1459-74 (2007)
PMID: 17223130

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-136689 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
RNA-directed RNA polymerase Chain: A
Molecule details ›
Chain: A
Length: 461 amino acids
Theoretical weight: 52.99 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:

Ligands and Environments

4 bound ligands:
Ligand MN 2 x MN
Ligand NA 1 x NA
Ligand UTP 1 x UTP
Ligand ACY 4 x ACY
1 modified residue:
Ligand CAS 4 x CAS

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P65
Unit cell:
a: 128.115Å b: 128.115Å c: 112.833Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.237 0.237 0.269
Expression system: Escherichia coli

Quick links

Citations

7 review citations

Common and unique features of viral RNA-dependent polymerases.
te Velthuis AJ. (2014)
6 more

3 mentions without citation

Molecular dynamics simulations of viral RNA polymerases link conserved and correlated motions of functional elements to fidelity.
Moustafa et al. (2011)
2 more