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Updated: Oct 25, 2025

Preparation of Nucleosome Core Particles Complexed with DNA Repair Factors for Cryo-Electron Microscopy Structural Determination
Published on: August 17, 2022
Cryo-EM of NHEJ supercomplexes provides insights into DNA repair
Amanda K Chaplin1, Steven W Hardwick2, Antonia Kefala Stavridi1
1Department of Biochemistry, University of Cambridge, Sanger Building, Tennis Court Road, Cambridge CB2 1GA, UK.
Abstract:
Non-homologous end joining (NHEJ) is one of two critical mechanisms utilized in humans to repair DNA double-strand breaks (DSBs). Unrepaired or incorrect repair of DSBs can lead to apoptosis or cancer. NHEJ involves several proteins, including the Ku70/80 heterodimer, DNA-dependent protein kinase catalytic subunit (DNA-PKcs), X-ray cross-complementing protein 4 (XRCC4), XRCC4-like factor (XLF), and ligase IV. These core proteins bind DSBs and ligate the damaged DNA ends. However, details of the structural assembly of these proteins remain unclear. Here, we present cryo-EM structures of NHEJ supercomplexes that are composed of these core proteins and DNA, revealing the detailed structural architecture of this assembly. We describe monomeric and dimeric forms of this supercomplex and also propose the existence of alternate dimeric forms of long-range synaptic complexes. Finally, we show that mutational disruption of several structural features within these NHEJ complexes negatively affects DNA repair.
Insights
Non-homologous end joining (NHEJ) repairs DNA double-strand breaks (DSBs). Cryo-EM structures reveal the assembly of NHEJ supercomplexes, clarifying their architecture and function in DNA repair.
Area of Science:
- Molecular Biology
- Structural Biology
- Genetics
Background:
- Non-homologous end joining (NHEJ) is a critical DNA repair pathway in humans.
- Defects in NHEJ can lead to genomic instability, apoptosis, and cancer.
- The precise structural organization of NHEJ core proteins at DNA breaks was previously unknown.
Purpose of the Study:
- To elucidate the structural architecture of NHEJ supercomplexes.
- To visualize the assembly of core NHEJ proteins with DNA.
- To understand the structural basis of NHEJ function in DNA repair.
Main Methods:
- Cryo-electron microscopy (cryo-EM) to determine high-resolution structures.
- Biochemical analysis of NHEJ protein complexes.
- Functional assays involving site-directed mutagenesis.
Main Results:
- Presented cryo-EM structures of monomeric and dimeric NHEJ supercomplexes bound to DNA.
- Revealed the detailed structural assembly and architecture of the NHEJ machinery.
- Demonstrated that mutations disrupting key structural features impair DNA repair efficiency.
Conclusions:
- The study provides unprecedented structural insights into the NHEJ pathway.
- Understanding NHEJ supercomplex architecture is crucial for comprehending DNA double-strand break repair.
- Structural information can guide future research into NHEJ-related diseases and therapeutic strategies.
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