› 2d3u

X-ray diffraction
2Å resolution

X-ray crystal structure of hepatitis C virus RNA dependent RNA polymerase in complex with non-nucleoside analogue inhibitor

Released:
DOI: 10.2210/pdb2d3u/pdb
PDB entry 2d3u coloured by chain, front view.
PDB entry 2d3u coloured by chain, side view.
PDB entry 2d3u coloured by chain, top view.
Source organism: Hepacivirus C
Primary publication:
Non-nucleoside inhibitors binding to hepatitis C virus NS5B polymerase reveal a novel mechanism of inhibition.
Biswal BK, Wang M, Cherney MM, Chan L, Yannopoulos CG, Bilimoria D, Bedard J, James MN
J Mol Biol 361 33-45 (2006)
PMID: 16828488

Function and Biology Details

Reactions catalysed: 
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 domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-189299 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
polyprotein Chains: A, B
Molecule details ›
Chains: A, B
Length: 570 amino acids
Theoretical weight: 63.27 KDa
Source organism: Hepacivirus C
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q99AU2 (Residues: 2420-2989; Coverage: 19%)
Sequence domains: Viral RNA dependent RNA polymerase
Structure domains: Alpha-Beta Plaits

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU300
Spacegroup: P212121
Unit cell:
a: 84.925Å b: 104.314Å c: 127.013Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.208 0.208 0.245
Expression system: Escherichia coli BL21

Quick links

Citations

11 review citations

Structure-function relationships among RNA-dependent RNA polymerases.
Ng et al. (2008)
10 more

6 mentions without citation

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