6GY8 image
Deposition Date 2018-06-28
Release Date 2018-07-25
Last Version Date 2024-05-15
Entry Detail
PDB ID:
6GY8
Keywords:
Title:
Crystal structure of XaxA from Xenorhabdus nematophila
Biological Source:
Method Details:
Experimental Method:
Resolution:
2.50 Å
R-Value Free:
0.28
R-Value Work:
0.23
R-Value Observed:
0.24
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:XaxA
Gene (Uniprot):xaxA
Chain IDs:A, B
Chain Length:408
Number of Molecules:2
Biological Source:Xenorhabdus nematophila (strain ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6)
Primary Citation
Membrane insertion of alpha-xenorhabdolysin in near-atomic detail.
Elife 7 ? ? (2018)
PMID: 30010541 DOI: 10.7554/eLife.38017

Abstact

α-Xenorhabdolysins (Xax) are α-pore-forming toxins (α-PFT) that form 1-1.3 MDa large pore complexes to perforate the host cell membrane. PFTs are used by a variety of bacterial pathogens to attack host cells. Due to the lack of structural information, the molecular mechanism of action of Xax toxins is poorly understood. Here, we report the cryo-EM structure of the XaxAB pore complex from Xenorhabdus nematophila and the crystal structures of the soluble monomers of XaxA and XaxB. The structures reveal that XaxA and XaxB are built similarly and appear as heterodimers in the 12-15 subunits containing pore, classifying XaxAB as bi-component α-PFT. Major conformational changes in XaxB, including the swinging out of an amphipathic helix are responsible for membrane insertion. XaxA acts as an activator and stabilizer for XaxB that forms the actual transmembrane pore. Based on our results, we propose a novel structural model for the mechanism of Xax intoxication.

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