› 3d0l

X-ray diffraction
2.35Å resolution

Crystal structure of the HIV-1 broadly neutralizing antibody 2F5 in complex with the gp41 FP-MPER Hyb3K construct 514GIGALFLGFLGAAGS528KK-Ahx-655KNEQELLELDKWASLWN671

Released:
DOI: 10.2210/pdb3d0l/pdb
PDB entry 3d0l coloured by chain, front view.
PDB entry 3d0l coloured by chain, side view.
PDB entry 3d0l coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural details of HIV-1 recognition by the broadly neutralizing monoclonal antibody 2F5: epitope conformation, antigen-recognition loop mobility, and anion-binding site.
Julien JP, Bryson S, Nieva JL, Pai EF
J Mol Biol 384 377-92 (2008)
PMID: 18824005

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-211615 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
2F5 heavy chain Chain: A
Molecule details ›
Chain: A
Length: 214 amino acids
Theoretical weight: 23.42 KDa
Source organism: Homo sapiens
Structure domains: Immunoglobulins
Ig-like domain-containing protein Chain: B
Molecule details ›
Chain: B
Length: 237 amino acids
Theoretical weight: 25.25 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q6GMX6 (Residues: 20-49, 50-115, 116-122, 123-240; Coverage: 50%)
Gene name: IGH@
Sequence domains:
Structure domains: Immunoglobulins
Hyb3k peptide construct Chain: C
Molecule details ›
Chain: C
Length: 35 amino acids
Theoretical weight: 3.82 KDa

Ligands and Environments

2 bound ligands:
Ligand SO4 2 x SO4
Ligand GOL 1 x GOL
1 modified residue:
Ligand YCM 1 x YCM

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RUH3R
Spacegroup: P212121
Unit cell:
a: 63.3Å b: 76.7Å c: 94Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.211 0.211 0.229

Quick links

Citations

8 review citations

Structural insights into key sites of vulnerability on HIV-1 Env and influenza HA.
Julien et al. (2012)
7 more

7 mentions without citation

Max Bergmann lecture protein epitope mimetics in the age of structural vaccinology.
Robinson JA. (2013)
6 more