› 5eoc

X-ray diffraction
1.98Å resolution

Crystal structure of Fab C2 in complex with a Cyclic variant of Hepatitis C Virus E2 epitope I

Released:
DOI: 10.2210/pdb5eoc/pdb
PDB entry 5eoc coloured by chain, front view.
PDB entry 5eoc coloured by chain, side view.
PDB entry 5eoc coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Generation and Characterization of Monoclonal Antibodies against a Cyclic Variant of Hepatitis C Virus E2 Epitope 412-422.
Sandomenico A, Leonardi A, Berisio R, Sanguigno L, Focà G, Focà A, Ruggiero A, Doti N, Muscariello L, Barone D, Farina C, Owsianka A, Vitagliano L, Patel AH, Ruvo M
J Virol 90 3745-59 (2016)
PMID: 26819303

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 trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-219351 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Fab fragment (Heavy chain) Chain: H
Molecule details ›
Chain: H
Length: 217 amino acids
Theoretical weight: 23.4 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
Fab fragment (Light chain) Chains: L, M
Molecule details ›
Chains: L, M
Length: 216 amino acids
Theoretical weight: 23.81 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
Fab fragment (Heavy chain) Chain: J
Molecule details ›
Chain: J
Length: 217 amino acids
Theoretical weight: 23.41 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
Envelope glycoprotein E2 Chains: P, Q
Molecule details ›
Chains: P, Q
Length: 14 amino acids
Theoretical weight: 1.56 KDa
UniProt:
  • Canonical: P27958 (Residues: 412-422; Coverage: 0%)

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: P1
Unit cell:
a: 54.972Å b: 56.191Å c: 77.153Å
α: 90.35° β: 90.18° γ: 94.98°
R-values:
R R work R free
0.234 0.234 0.266

Quick links

Citations

10 review citations

The Neutralizing Face of Hepatitis C Virus E2 Envelope Glycoprotein.
Tzarum et al. (2018)
9 more

5 mentions without citation

Computational Modeling of Hepatitis C Virus Envelope Glycoprotein Structure and Recognition.
Guest et al. (2018)
4 more