8XAV image
Entry Detail
PDB ID:
8XAV
EMDB ID:
Title:
Cryo-EM structure of an anti-phage defense complex
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2023-12-05
Release Date:
2024-06-05
Method Details:
Experimental Method:
Resolution:
2.87 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:ATP-binding protein
Chain IDs:A, B, C, D, E, F
Chain Length:571
Number of Molecules:6
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Description:DUF4297
Chain IDs:G, H, I, J, K, L, M, N, O, P, Q, R
Chain Length:394
Number of Molecules:12
Biological Source:Escherichia coli
Ligand Molecules
Primary Citation
Molecular and structural basis of an ATPase-nuclease dual-enzyme anti-phage defense complex.
Cell Res. 34 545 555 (2024)
PMID: 38834762 DOI: 10.1038/s41422-024-00981-w

Abstact

Coupling distinct enzymatic effectors emerges as an efficient strategy for defense against phage infection in bacterial immune responses, such as the widely studied nuclease and cyclase activities in the type III CRISPR-Cas system. However, concerted enzymatic activities in other bacterial defense systems are poorly understood. Here, we biochemically and structurally characterize a two-component defense system DUF4297-HerA, demonstrating that DUF4297-HerA confers resistance against phage infection by cooperatively cleaving dsDNA and hydrolyzing ATP. DUF4297 alone forms a dimer, and HerA alone exists as a nonplanar split spiral hexamer, both of which exhibit extremely low enzymatic activity. Interestingly, DUF4297 and HerA assemble into an approximately 1 MDa supramolecular complex, where two layers of DUF4297 (6 DUF4297 molecules per layer) linked via inter-layer dimerization of neighboring DUF4297 molecules are stacked on top of the HerA hexamer. Importantly, the complex assembly promotes dimerization of DUF4297 molecules in the upper layer and enables a transition of HerA from a nonplanar hexamer to a planar hexamer, thus activating their respective enzymatic activities to abrogate phage infection. Together, our findings not only characterize a novel dual-enzyme anti-phage defense system, but also reveal a unique activation mechanism by cooperative complex assembly in bacterial immunity.

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