8KAD image
Deposition Date 2023-08-02
Release Date 2023-12-27
Last Version Date 2024-11-06
Entry Detail
PDB ID:
8KAD
Keywords:
Title:
Crystal structure of an antibody light chain tetramer with 3D domain swapping
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.00 Å
R-Value Free:
0.29
R-Value Work:
0.25
R-Value Observed:
0.25
Space Group:
P 65 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Antibody light chain
Chain IDs:A, B
Chain Length:120
Number of Molecules:2
Biological Source:Homo sapiens
Primary Citation
Structural and thermodynamic insights into antibody light chain tetramer formation through 3D domain swapping.
Nat Commun 14 7807 7807 (2023)
PMID: 38065949 DOI: 10.1038/s41467-023-43443-4

Abstact

Overexpression of antibody light chains in small plasma cell clones can lead to misfolding and aggregation. On the other hand, the formation of amyloid fibrils from antibody light chains is related to amyloidosis. Although aggregation of antibody light chain is an important issue, atomic-level structural examinations of antibody light chain aggregates are sparse. In this study, we present an antibody light chain that maintains an equilibrium between its monomeric and tetrameric states. According to data from X-ray crystallography, thermodynamic and kinetic measurements, as well as theoretical studies, this antibody light chain engages in 3D domain swapping within its variable region. Here, a pair of domain-swapped dimers creates a tetramer through hydrophobic interactions, facilitating the revelation of the domain-swapped structure. The negative cotton effect linked to the β-sheet structure, observed around 215 nm in the circular dichroism (CD) spectrum of the tetrameric variable region, is more pronounced than that of the monomer. This suggests that the monomer contains less β-sheet structures and exhibits greater flexibility than the tetramer in solution. These findings not only clarify the domain-swapped structure of the antibody light chain but also contribute to controlling antibody quality and advancing the development of future molecular recognition agents and drugs.

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