› 4e7a

X-ray diffraction
3Å resolution

Crystal structure of a product state assembly of HCV NS5B genotype 2a JFH-1 isolate with beta hairpin deletion bound to primer-template RNA with a 2',3'-ddC

Released:
DOI: 10.2210/pdb4e7a/pdb
PDB entry 4e7a coloured by chain, front view.
PDB entry 4e7a coloured by chain, side view.
PDB entry 4e7a coloured by chain, top view.
Source organism: Hepatitis C virus JFH-1
Primary publication:
Structure of hepatitis C virus polymerase in complex with primer-template RNA.
Mosley RT, Edwards TE, Murakami E, Lam AM, Grice RL, Du J, Sofia MJ, Furman PA, Otto MJ
J Virol 86 6503-11 (2012)
PMID: 22496223

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:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-113146 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA/RNA hybrid molecule
Macromolecules (2 distinct):
RNA-directed RNA polymerase Chain: A
Molecule details ›
Chain: A
Length: 572 amino acids
Theoretical weight: 63.74 KDa
Source organism: Hepatitis C virus JFH-1
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q99IB8 (Residues: 2443-2885, 2896-3012; Coverage: 19%)
Sequence domains: Viral RNA dependent RNA polymerase
5'-R(*CP*AP*UP*GP*GP*C)-D(P*(DOC))-3' Chains: P, T
Molecule details ›
Chains: P, T
Length: 7 nucleotides
Theoretical weight: 2.16 KDa

Ligands and Environments

No bound ligands
1 modified residue:
Ligand DOC 2 x DOC

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-G
Spacegroup: P65
Unit cell:
a: 142.73Å b: 142.73Å c: 91.5Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.197 0.194 0.241
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

22 review citations

The molecular and structural basis of advanced antiviral therapy for hepatitis C virus infection.
Bartenschlager et al. (2013)
21 more

8 mentions without citation

Picornaviral polymerase structure, function, and fidelity modulation.
Peersen OB. (2017)
7 more