› 7jks

X-ray diffraction
3.45Å resolution

Crystal structure of vaccine-elicited broadly neutralizing VRC01-class antibody 2411a in complex with HIV-1 gp120 core

Released:
DOI: 10.2210/pdb7jks/pdb
Model geometry
Fit model/data
PDB entry 7jks coloured by chain, front view.
PDB entry 7jks coloured by chain, side view.
PDB entry 7jks coloured by chain, top view.
Source organisms:
Primary publication:
Vaccination induces maturation in a mouse model of diverse unmutated VRC01-class precursors to HIV-neutralizing antibodies with >50% breadth.
Chen X, Zhou T, Schmidt SD, Duan H, Cheng C, Chuang GY, Gu Y, Louder MK, Lin BC, Shen CH, Sheng Z, Zheng MX, Doria-Rose NA, Joyce MG, Shapiro L, Tian M, Alt FW, Kwong PD, Mascola JR
Immunity 54 324-339.e8 (2021)
PMID: 33453152

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-207904 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (4 distinct):
Envelope glycoprotein gp160 Chain: G
Molecule details ›
Chain: G
Length: 375 amino acids
Theoretical weight: 41.84 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Homo sapiens
UniProt:
  • Canonical: H9DP89 (Residues: 43-490; Coverage: 42%)
Gene name: env
Sequence domains: Envelope glycoprotein GP120
The heavy chain of antibody 2411a Chain: H
Molecule details ›
Chain: H
Length: 232 amino acids
Theoretical weight: 25.49 KDa
Source organism: Mus musculus
Expression system: Homo sapiens
The light chain of antibody 2411a Chain: L

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
1 bound ligand:
Ligand NAG 7 x NAG
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P21212
Unit cell:
a: 108.92Å b: 188.33Å c: 45.9Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.285 0.283 0.332
Expression system: Homo sapiens

Quick links

Citations

8 review citations

Strategies for HIV-1 vaccines that induce broadly neutralizing antibodies.
Haynes et al. (2023)
7 more

2 mentions without citation

A Structural Update of Neutralizing Epitopes on the HIV Envelope, a Moving Target.
Parker Miller et al. (2021)
1 more