› 4ffz

X-ray diffraction
3.8Å resolution

Crystal Structure of DENV1-E111 fab fragment bound to DENV-1 DIII (Western Pacific-74 strain).

Released:
DOI: 10.2210/pdb4ffz/pdb
PDB entry 4ffz coloured by chain, front view.
PDB entry 4ffz coloured by chain, side view.
PDB entry 4ffz coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of differential neutralization of DENV-1 genotypes by an antibody that recognizes a cryptic epitope.
Austin SK, Dowd KA, Shrestha B, Nelson CA, Edeling MA, Johnson S, Pierson TC, Diamond MS, Fremont DH
PLoS Pathog 8 e1002930 (2012)
PMID: 23055922

Function and Biology Details

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-212557 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Envelope protein E Chains: A, X
Molecule details ›
Chains: A, X
Length: 111 amino acids
Theoretical weight: 12 KDa
Source organism: Dengue virus 1 Nauru/West Pac/1974
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q88640 (Residues: 293-399; Coverage: 22%)
Sequence domains: Flavivirus glycoprotein, immunoglobulin-like domain
Structure domains: Immunoglobulin-like
DENV1-E111 fab fragment (light chain) Chains: L, Y
Molecule details ›
Chains: L, Y
Length: 216 amino acids
Theoretical weight: 23.8 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
DENV1-E111 fab fragment (heavy chain) Chains: H, Z
Molecule details ›
Chains: H, Z
Length: 217 amino acids
Theoretical weight: 23.73 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P21
Unit cell:
a: 82.865Å b: 52.013Å c: 136.402Å
α: 90° β: 107.49° γ: 90°
R-values:
R R work R free
0.238 0.237 0.278
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

26 review citations

Dengue.
Guzman et al. (2015)
25 more

3 mentions without citation

Structural basis of differential neutralization of DENV-1 genotypes by an antibody that recognizes a cryptic epitope.
Austin et al. (2012)
2 more