› 5tsn

X-ray diffraction
2.1Å resolution

Crystal structures of Norwalk virus polymerase bound to an RNA primer-template duplex

Released:
DOI: 10.2210/pdb5tsn/pdb
PDB entry 5tsn coloured by chain, front view.
PDB entry 5tsn coloured by chain, side view.
PDB entry 5tsn coloured by chain, top view.
Source organism: Norwalk virus
Primary publication:
Norovirus RNA-dependent RNA polymerase: A computational study of metal-binding preferences.
Shaik MM, Bhattacharjee N, Feliks M, Ng KK, Field MJ
Proteins 85 1435-1445 (2017)
PMID: 28383118

Function and Biology Details

Reaction catalysed: 
Endopeptidase with a preference for cleavage when the P1 position is occupied by Glu-|- and the P1' position is occupied by Gly-|-
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-180679 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Norwalk virus polymerase Chain: A
Molecule details ›
Chain: A
Length: 510 amino acids
Theoretical weight: 56.84 KDa
Source organism: Norwalk virus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q70ET3 (Residues: 331-838; Coverage: 61%)
Sequence domains: Viral RNA-dependent RNA polymerase
Structure domains:
RNA (5'-R(*UP*GP*CP*CP*CP*GP*GP*G)-3') Chains: P, T
Molecule details ›
Chains: P, T
Length: 8 nucleotides
Theoretical weight: 2.54 KDa
Source organism: Norwalk virus
Expression system: Not provided

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL12-2
Spacegroup: P41212
Unit cell:
a: 81.76Å b: 81.76Å c: 189.03Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.176 0.174 0.22
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

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

2 mentions without citation

Crystal structures of alphavirus nonstructural protein 4 (nsP4) reveal an intrinsically dynamic RNA-dependent RNA polymerase fold.
Tan et al. (2022)
1 more