› 4ry5

X-ray diffraction
2.71Å resolution

C-terminal mutant (W550N) of HCV/J4 RNA polymerase

Released:
DOI: 10.2210/pdb4ry5/pdb
PDB entry 4ry5 coloured by chain, front view.
PDB entry 4ry5 coloured by chain, side view.
PDB entry 4ry5 coloured by chain, top view.
Source organism: Hepatitis C virus isolate HC-J4
Primary publication:
Hydrophobic and charged residues in the C-terminal arm of hepatitis C virus RNA-dependent RNA polymerase regulate initiation and elongation.
Cherry AL, Dennis CA, Baron A, Eisele LE, Thommes PA, Jaeger J
J Virol 89 2052-63 (2015)
PMID: 25428878

Function and Biology Details

Reactions catalysed: 
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Hydrolysis of four peptide bonds in the viral precursor polyprotein, commonly with Asp or Glu in the P6 position, Cys or Thr in P1 and Ser or Ala in P1'.
NTP + H(2)O = NDP + phosphate
ATP + H(2)O = ADP + phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-131655 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
RNA-directed RNA polymerase Chains: A, B
Molecule details ›
Chains: A, B
Length: 570 amino acids
Theoretical weight: 63.38 KDa
Source organism: Hepatitis C virus isolate HC-J4
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: O92972 (Residues: 2420-2989; Coverage: 19%)
Sequence domains: Viral RNA dependent RNA polymerase

Ligands and Environments

2 bound ligands:
Ligand MN 4 x MN
Ligand UTP 2 x UTP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SRS BEAMLINE PX14.2
Spacegroup: P212121
Unit cell:
a: 105.49Å b: 107.946Å c: 133.25Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.171 0.166 0.248
Expression system: Escherichia coli BL21

Quick links

Citations

2 review citations

A Structural Overview of RNA-Dependent RNA Polymerases from the Flaviviridae Family.
Wu et al. (2015)
1 more

3 mentions without citation

Structural Insights into the Binding Modes of Viral RNA-Dependent RNA Polymerases Using a Function-Site Interaction Fingerprint Method for RNA Virus Drug Discovery.
Zhao et al. (2020)
2 more