› 6wo5

X-ray diffraction
2.62Å resolution

Structure of Hepatitis C Virus Envelope Glycoprotein E2 core from genotype 1a bound to neutralizing antibody 212.1.1 and non neutralizing antibody E1

Released:
DOI: 10.2210/pdb6wo5/pdb
PDB entry 6wo5 coloured by chain, front view.
PDB entry 6wo5 coloured by chain, side view.
PDB entry 6wo5 coloured by chain, top view.
Source organisms:
Primary publication:
An alternate conformation of HCV E2 neutralizing face as an additional vaccine target.
Tzarum N, Giang E, Kadam RU, Chen F, Nagy K, Augestad EH, Velázquez-Moctezuma R, Keck ZY, Hua Y, Stanfield RL, Dreux M, Prentoe J, Foung SKH, Bukh J, Wilson IA, Law M
OpenAccess logo Sci Adv 6 eabb5642 (2020)
PMID: 32754640

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:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-210955 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (8 distinct):
Fab E1 heavy chain Chains: A, C
Molecule details ›
Chains: A, C
Length: 227 amino acids
Theoretical weight: 23.94 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Fab E1 light chain Chains: B, D
Molecule details ›
Chains: B, D
Length: 221 amino acids
Theoretical weight: 24.3 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Fab 212.1.1 heavy chain Chains: G, H
Molecule details ›
Chains: G, H
Length: 230 amino acids
Theoretical weight: 23.84 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Fab 212.1.1 light chain Chains: I, L
Molecule details ›
Chains: I, L
Length: 214 amino acids
Theoretical weight: 23.31 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Envelope glycoprotein E2 Chains: E, F
Molecule details ›
Chains: E, F
Length: 191 amino acids
Theoretical weight: 20.86 KDa
Source organism: Hepatitis C virus (isolate H)
Expression system: Homo sapiens
UniProt:
  • Canonical: P27958 (Residues: 412-645; Coverage: 6%)
Sequence domains: Hepatitis C virus non-structural protein E2/NS1

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
2 bound ligands:
Ligand NAG 5 x NAG
Ligand BMA 1 x BMA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL12-2
Spacegroup: P21
Unit cell:
a: 55.793Å b: 242.204Å c: 100.729Å
α: 90° β: 98.31° γ: 90°
R-values:
R R work R free
0.205 0.203 0.25
Expression system: Homo sapiens

Quick links

Citations

7 review citations

Mechanisms of Hepatitis C Virus Escape from Vaccine-Relevant Neutralizing Antibodies.
Velázquez-Moctezuma et al. (2021)
6 more

3 mentions without citation

To Include or Occlude: Rational Engineering of HCV Vaccines for Humoral Immunity.
Schlotthauer et al. (2021)
2 more