# DNA polymerase λ autoinhibition is relieved via Ku interaction during non-homologous end joining

**Authors:** Brandon C Case, Leonardo Scoccia, Zhihan Zhao, Joseph J Loparo

PMC · DOI: 10.1093/nar/gkag114 · Nucleic Acids Research · 2026-02-17

## TL;DR

This study reveals how Ku protein relieves the autoinhibition of DNA polymerase λ during DNA repair, enhancing its activity in fixing DNA breaks.

## Contribution

The study identifies a novel mechanism where Ku interaction relieves Pol λ autoinhibition, stimulating its activity during non-homologous end joining.

## Key findings

- Ku stimulates Pol λ polymerase activity at DNA double-strand breaks.
- An autoinhibitory interaction exists between the N-terminal BRCT and C-terminal catalytic domains of Pol λ.
- Ku increases Pol λ binding and nucleotide incorporation rates during DNA repair.

## Abstract

DNA ends are frequently damaged during the formation of DNA double-strand breaks (DSBs). These ends must be repaired to enable ligation during non-homologous end joining (NHEJ). NHEJ uses several end processing factors to repair DNA ends within the short-range synaptic complex (SRC), including Polymerase λ (Pol λ) which performs gap fill-in. Pol λ possesses a Ku Binding Motif (KBM) within its BRCT domain that interacts with Ku and recruits it to the SRC. Here, we show that in addition to its role in recruitment, Ku also stimulates Pol λ polymerase activity at DSBs. Using a structural prediction approach and biochemical assays, we identify and characterize an autoinhibitory intramolecular interaction between the N-terminal BRCT and C-terminal catalytic domains of Pol λ. Furthermore, single-molecule approaches reveal that Ku increases both the binding rate of Pol λ to primer-template DNA and the rate of nucleotide incorporation, demonstrating that Ku releases Pol λ autoinhibition and stimulates its polymerase activity within the SRC during NHEJ. Combined, these data highlight how intricate protein–protein interactions within the SRC complex are critical to regulate end-processing and maximize the fidelity of DSB repair.

Graphical Abstract

## Linked entities

- **Genes:** POLL (DNA polymerase lambda) [NCBI Gene 27343]
- **Proteins:** ku (non-homologous end joining protein Ku)

## Full-text entities

- **Genes:** XRCC5 (X-ray repair cross complementing 5) [NCBI Gene 7520] {aka KARP-1, KARP1, KU80, KUB2, Ku86, NFIV}, TDP1 (tyrosyl-DNA phosphodiesterase 1) [NCBI Gene 55775], PRKDC (protein kinase, DNA-activated, catalytic subunit) [NCBI Gene 5591] {aka DNA-PKC, DNA-PKcs, DNAPK, DNAPKc, DNPK1, HYRC}, SRC (SRC proto-oncogene, non-receptor tyrosine kinase) [NCBI Gene 6714] {aka ASV, SRC1, THC6, c-SRC, p60-Src}, XRCC1 (X-ray repair cross complementing 1) [NCBI Gene 7515] {aka RCC, SCAR26}, NHEJ1 (non-homologous end joining factor 1) [NCBI Gene 79840] {aka IMD124, MCOPCB13, XLF}, ATM (ATM serine/threonine kinase) [NCBI Gene 472] {aka AT1, ATA, ATC, ATD, ATDC, ATE}, POLM (DNA polymerase mu) [NCBI Gene 27434] {aka Pol Mu, Tdt-N}, LIG4 (DNA ligase 4) [NCBI Gene 3981] {aka LIG4S}, src.S (SRC proto-oncogene, non-receptor tyrosine kinase S homeolog) [NCBI Gene 373647] {aka c-src, csrc, pp60c-src, pp60v-src, src, src-1}, XRCC4 (X-ray repair cross complementing 4) [NCBI Gene 7518] {aka SSMED, hXRCC4}, SENP3 (SUMO specific peptidase 3) [NCBI Gene 26168] {aka SMT3IP1, SSP3, Ulp1}, XRCC6 (X-ray repair cross complementing 6) [NCBI Gene 2547] {aka CTC75, CTCBF, G22P1, KU70, ML8, TLAA}, POLB (DNA polymerase beta) [NCBI Gene 5423], PNKP (polynucleotide kinase 3'-phosphatase) [NCBI Gene 11284] {aka AOA4, CMT2B2, EIEE10, MCSZ, PNK}, POLL (DNA polymerase lambda) [NCBI Gene 27343] {aka BETAN, POLKAPPA}
- **Diseases:** cancer (MESH:D009369), tumorigenesis (MESH:D063646)
- **Chemicals:** His (MESH:D006639), EDTA (MESH:D004492), Urea (MESH:D014508), nitrogen (MESH:D009584), CoA (MESH:D003065), dGTP (MESH:C029603), dCTP (MESH:C024107), Cy3 (-), MgCl2 (MESH:D015636), FAM (MESH:C031179), NaCl (MESH:D012965), phosphate (MESH:D010710), formamide (MESH:C031066), glycerol (MESH:D005990), oxygen (MESH:D010100), HEPES (MESH:D006531), biotin (MESH:D001710), KCl (MESH:D011189), sodium tetraborate (MESH:C010634), DTT (MESH:D004229), ascorbic acid (MESH:D001205), HCl (MESH:D006851), ethanol (MESH:D000431), acrylamide (MESH:D020106), DMSO (MESH:D004121), oligo (MESH:C023505), Cy5 (MESH:C085321), methyl viologen (MESH:D010269), Poly-A (MESH:D011061), Amp (MESH:D000249), Cy3B-NHS Ester (MESH:C495965), Ampicillin (MESH:D000667), imidazole (MESH:C029899), water (MESH:D014867), protocatechuic acid (MESH:C009091), dTTP (MESH:C024157), sucrose (MESH:D013395), Nucleotide (MESH:D009711), KOH (MESH:C029943)
- **Species:** Homo sapiens (human, species) [taxon 9606], Xenopus laevis (African clawed frog, species) [taxon 8355]
- **Mutations:** Asp85, D85A, R55, R55A, Ser-Pro, W277A, E86W, Asp86, R438W, E86, E86A
- **Cell lines:** BL21 (DE3) — Mus musculus (Mouse), Hybridoma (CVCL_B7HM)

## Full text

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## Figures

6 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12910108/full.md

## References

63 references — full list in the complete paper: https://tomesphere.com/paper/PMC12910108/full.md

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Source: https://tomesphere.com/paper/PMC12910108