# Huntingtin (HTT) interactome in regulation of DNA repair/remodeling and RNA processing pathways

**Authors:** Tamara Ratovitski, Chloe D Holland, Robert N O’Meally, Alexey V Shevelkin, Siddhi V Kamath, Tianze Shi, Matthew J Rodriguez, Robert N Cole, Mali Jiang, Christopher A Ross

PMC · DOI: 10.26508/lsa.202503424 · 2026-03-18

## TL;DR

The study explores how the huntingtin protein interacts with other proteins to regulate DNA repair and RNA processing, which may contribute to Huntington's disease.

## Contribution

The study identifies new interactions of huntingtin with DNA repair and RNA processing proteins, suggesting a novel role in integrating these pathways.

## Key findings

- HD neurons show impaired DNA double-strand break repair response.
- HTT interacts with DNA-PKcs and nuclear speckle proteins TCERG1 and MED15.
- HTT may act as a scaffolding intermediary in DNA repair and RNA processing.

## Abstract

This study of protein interactions of HTT using multiple approaches supports its role in facilitating the emerging integration and interplay between DNA damage/remodeling and RNA processing pathways.

Huntington’s disease (HD), an uncurable neurodegenerative disorder, is caused by CAG repeat expansion in the HD gene encoding mutant huntingtin protein. DNA damage response is implicated in HD pathogenesis. We used multiple approaches to assess normal and mutant HTT interactomes in the context of genotoxic stress. We show that double-strand break (DSB) repair response is impaired in HD neurons, which are more vulnerable to DSB-induced stress. We found that S1181 phosphorylation of HTT is regulated by DSB, and can be carried out by DNA-PK. Functional interaction of HTT with a major DSB kinase DNA-PKcs and association of both proteins with nuclear speckles suggest a role of HTT in DSB repair mechanism; however, physiological outcome of these interactions remains to be examined. We revealed HTT interactions with other proteins associated with nuclear speckles, TCERG1 and MED15, whose loci are genetic modifiers for HD, and with chromatin remodeling complex BAF. These interactions may position HTT as an important scaffolding intermediary providing integrated regulation of gene expression and RNA processing in the context of DNA repair mechanisms.

## Linked entities

- **Genes:** HTT (huntingtin) [NCBI Gene 3064], HTT (huntingtin) [NCBI Gene 3064], TCERG1 (transcription elongation regulator 1) [NCBI Gene 10915], MED15 (mediator complex subunit 15) [NCBI Gene 51586]
- **Proteins:** HTT (huntingtin), PRKDC (protein kinase, DNA-activated, catalytic subunit), PRKDC (protein kinase, DNA-activated, catalytic subunit), TCERG1 (transcription elongation regulator 1), MED15 (mediator complex subunit 15), BANF1 (barrier to autointegration nuclear assembly factor 1)
- **Diseases:** Huntington’s disease (MONDO:0007739), HD (MONDO:0007739)

## Full-text entities

- **Genes:** CCDC82 (coiled-coil domain containing 82) [NCBI Gene 79780] {aka HSPC048}, H2AX (H2A.X variant histone) [NCBI Gene 3014] {aka H2A.X, H2A/X, H2AFX}, EWSR1 (EWS RNA binding protein 1) [NCBI Gene 2130] {aka EWS, EWS-FLI1}, ATR (ATR checkpoint kinase) [NCBI Gene 545] {aka FCTCS, FRP1, MEC1, SCKL, SCKL1}, H2ax (H2A.X variant histone) [NCBI Gene 15270] {aka H2A.X, H2afx, Hist5-2ax, gammaH2ax}, GOLGA2 (golgin A2) [NCBI Gene 2801] {aka DEDHMB, GM130}, SRSF2 (serine and arginine rich splicing factor 2) [NCBI Gene 6427] {aka PR264, SC-35, SC35, SFRS2, SFRS2A, SRp30b}, COIL (coilin) [NCBI Gene 8161] {aka CLN80, p80-coilin}, ARID1A (AT-rich interaction domain 1A) [NCBI Gene 487352], RRM2B (ribonucleotide reductase regulatory TP53 inducible subunit M2B) [NCBI Gene 50484] {aka MTDPS8A, MTDPS8B, P53R2, RCDFRD}, Arid1a (AT-rich interaction domain 1A) [NCBI Gene 93760] {aka 1110030E03Rik, BAF250, BAF250a, Osa1, Smarcf1}, TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}, HNRNPUL1 (heterogeneous nuclear ribonucleoprotein U like 1) [NCBI Gene 11100] {aka E1B-AP5, E1BAP5, HNRPUL1}, Smarca4 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4) [NCBI Gene 20586] {aka BAF190A, Brg1, HP1-BP72, SNF2beta, SW1/SNF, b2b508.1Clo}, BANF1 (barrier to autointegration nuclear assembly factor 1) [NCBI Gene 8815] {aka BAF, BCRP1, D14S1460, NGPS}, Eif5a (eukaryotic translation initiation factor 5A) [NCBI Gene 276770] {aka D19Wsu54e, Eif4d, Eif5a1, eIF-4D, eIF-5A, eIF-5A-1}, MSH2 (mutS homolog 2) [NCBI Gene 4436] {aka COCA1, FCC1, HNPCC, HNPCC1, LCFS2, LYNCH1}, Prkdc (protein kinase, DNA activated, catalytic polypeptide) [NCBI Gene 19090] {aka DNA-PKcs, DNAPDcs, DNAPK, DNPK1, DOXNPH, HYRC1}, ARID1A (AT-rich interaction domain 1A) [NCBI Gene 8289] {aka B120, BAF250, BAF250a, BM029, C1orf4, CSS2}, FUS (FUS RNA binding protein) [NCBI Gene 2521] {aka ALS6, ETM4, FUS1, HNRNPP2, POMP75, TLS}, HTT (huntingtin) [NCBI Gene 615059], TCERG1 (transcription elongation regulator 1) [NCBI Gene 478052], MED15 (mediator complex subunit 15) [NCBI Gene 51586] {aka ARC105, CAG7A, CTG7A, PCQAP, TIG-1, TIG1}, SRSF1 (serine and arginine rich splicing factor 1) [NCBI Gene 6426] {aka ASF, NEDFBA, SF2, SF2p33, SFRS1, SRp30a}, SPINK5 (serine peptidase inhibitor Kazal type 5) [NCBI Gene 11005] {aka LEKTI, LETKI, NETS, NS, VAKTI}, XRCC6 (X-ray repair cross complementing 6) [NCBI Gene 2547] {aka CTC75, CTCBF, G22P1, KU70, ML8, TLAA}, HTT (huntingtin) [NCBI Gene 3064] {aka HD, IT15, LOMARS}, ATM (ATM serine/threonine kinase) [NCBI Gene 472] {aka AT1, ATA, ATC, ATD, ATDC, ATE}, BDNF (brain derived neurotrophic factor) [NCBI Gene 627] {aka ANON2, BULN2}, NEAT1 (nuclear paraspeckle assembly transcript 1) [NCBI Gene 283131] {aka LINC00084, NCRNA00084, TP53LC15, TncRNA, VINC}, APEX2 (apurinic/apyrimidinic endodeoxyribonuclease 2) [NCBI Gene 27301] {aka APE2, APEXL2, XTH2, ZGRF2}, ATM (ATM serine/threonine kinase) [NCBI Gene 479450], PML (PML nuclear body scaffold) [NCBI Gene 5371] {aka MYL, PP8675, RNF71, TRIM19}, PRKDC (protein kinase, DNA-activated, catalytic subunit) [NCBI Gene 474176] {aka DNA-PKcs}, TCERG1 (transcription elongation regulator 1) [NCBI Gene 10915] {aka CA150, TAF2S, Urn1}, FAN1 (FANCD2 and FANCI associated nuclease 1) [NCBI Gene 22909] {aka KIAA1018, KMIN, MTMR15, hFAN1}, F8A1 (coagulation factor VIII associated 1) [NCBI Gene 8263] {aka DXS522E, F8A, HAP40}, SMARCA4 (SWI/SNF related BAF chromatin remodeling complex subunit ATPase 4) [NCBI Gene 6597] {aka BAF190, BAF190A, BRG1, CSS4, MRD16, OTSC12}, HTT (huntingtin) [NCBI Gene 479074] {aka HD}, H2AX (H2A.X variant histone) [NCBI Gene 489372], PRKDC (protein kinase, DNA-activated, catalytic subunit) [NCBI Gene 5591] {aka DNA-PKC, DNA-PKcs, DNAPK, DNAPKc, DNPK1, HYRC}, Htt (huntingtin) [NCBI Gene 15194] {aka C430023I11Rik, Hd, Hdh, IT15}, MYC (MYC proto-oncogene, bHLH transcription factor) [NCBI Gene 4609] {aka MRTL, MYCC, bHLHe39, c-Myc}
- **Diseases:** ISPN (MESH:C537500), DSB (MESH:D019457), HD (MESH:D006816), neurodegenerative disorder (MESH:D019636), mitochondrial dysfunction (MESH:D028361), NS (MESH:C564596), mutant huntingtin (MESH:D016115), toxicity (MESH:D064420), DDR (MESH:C537658)
- **Chemicals:** lipid (MESH:D008055), bleomycin (MESH:D001761), Alexa Fluor 555 (MESH:C000608607), glycerol (MESH:D005990), Alexa Fluor 488 (MESH:C000711379), Biotin (MESH:D001710), geneticin (MESH:C010680), EDTA (MESH:D004492), DAPI (MESH:C007293), SDS (MESH:D012967), MgCl2 (MESH:D015636), polyQ (MESH:C097188), Lipofectamine 2000 (MESH:C086724), CHAPS (MESH:C028213), KCl (MESH:D011189), C (MESH:D002244), Triton X-100 (MESH:D017830), agarose (MESH:D012685), (+/-)-6-hydroxy-2,5,7,8-tetramethylchromane-2-carboxylic acid (-), streptomycin (MESH:D013307), TFA (MESH:D014269), sodium deoxycholate (MESH:D003840), D-glucose (MESH:D005947), NaCl (MESH:D012965), formic acid (MESH:C030544), DTT (MESH:D004229), tamoxifen (MESH:D013629), phospho-serines (MESH:D010768), ATP (MESH:D000255), biotinyl tyramide (MESH:C111551), IAA (MESH:D007460), Tween-20 (MESH:D011136), CO2 (MESH:D002245), sodium L-ascorbate (MESH:D001205), Trolox (MESH:C010643), PBS (MESH:D007854), Na2CO3 (MESH:C005686), Peptides (MESH:D010455), HFIP (MESH:C001337), penicillin (MESH:D010406), H2O2 (MESH:D006861), sodium azide (MESH:D019810), ammonium bicarbonate (MESH:C027043), acetonitrile (MESH:C032159)
- **Species:** Homo sapiens (human, species) [taxon 9606], Mus musculus (house mouse, species) [taxon 10090], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932]
- **Mutations:** S116A, V581A, S1181, S1181A, R279L
- **Cell lines:** HeLa — Homo sapiens (Human), Human papillomavirus-related endocervical adenocarcinoma, Cancer cell line (CVCL_0030), HTT-23Q — Homo sapiens (Human), Human papillomavirus-related endocervical adenocarcinoma, Cancer cell line (CVCL_B1U2), HEK — Homo sapiens (Human), Human papillomavirus-related endocervical adenocarcinoma, Cancer cell line (CVCL_M624), 293FT — Homo sapiens (Human), Transformed cell line (CVCL_6911), SCM-2 — Homo sapiens (Human), Gastric carcinoma, Cancer cell line (CVCL_G299), HEK293 — Homo sapiens (Human), Transformed cell line (CVCL_0045), ISPN — Rattus norvegicus (Rat), Transformed cell line (CVCL_V169), Pan — Homo sapiens (Human), Pancreatic ductal adenocarcinoma, Cancer cell line (CVCL_A1II), SH-SY5Y — Homo sapiens (Human), Neuroblastoma, Cancer cell line (CVCL_0019), pCMV5 — Homo sapiens (Human), Neuroblastoma, Cancer cell line (CVCL_ER17), pEF-BOS-T7 — Bos gaurus frontalis (Domestic gayal), Finite cell line (CVCL_XE00)

## Figures

17 figures with captions in the complete paper: https://tomesphere.com/paper/PMC13000123/full.md

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Source: https://tomesphere.com/paper/PMC13000123