Evidence map›Paper›PMID 41917467›Full record

ArticleNature structural & molecular biology2026

Resolution of R-loops and transcription-replication conflicts by SETX-BRCA1-BARD1 complex.

Arijit Dutta, Jae-Hoon Ji, Shahrez Syed, Qingming Fang, Pramiti Mukhopadhyay, Hanzhou Wang, Eva Loranc, Daisy Medina, Shahad Abdulsahib, Shuo Zhou and 29 more

Abstract read
In one paragraph

Article in Nature structural & molecular biology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

7 citing papers in PubMed.

  1. Mechanisms and disease relevance of DNA break repair pathway choice.Nature reviews. Molecular cell biology · 2026
    Review
  2. Review
  3. Article
  4. Article
  5. RNA damage signaling primes transcription-coupled repair.Nature structural & molecular biology · 2026
    Article
  6. Article
  7. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

39 authors.

Arijit Dutta *Department of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.
Jae-Hoon Ji *Department of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.
Shahrez SyedDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0000-0002-0491-3566
Qingming FangDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0000-0002-4006-0636
Pramiti MukhopadhyayGreehey Children's Cancer Research Institute, University of Texas Health at San Antonio, San Antonio, TX, USA.
Hanzhou WangGreehey Children's Cancer Research Institute, University of Texas Health at San Antonio, San Antonio, TX, USA.
Eva LorancGreehey Children's Cancer Research Institute, University of Texas Health at San Antonio, San Antonio, TX, USA.
Daisy MedinaGreehey Children's Cancer Research Institute, University of Texas Health at San Antonio, San Antonio, TX, USA.
Shahad AbdulsahibGreehey Children's Cancer Research Institute, University of Texas Health at San Antonio, San Antonio, TX, USA.
Shuo ZhouDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.
Miriam TovarDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0009-0009-2844-781X
Jeff WangDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0000-0002-5376-1001
Jane M BenoitNationwide Children's Hospital, Center for Childhood Cancer, Columbus, OH, USA.ORCID http://orcid.org/0000-0001-9166-6219
Fengshan LiangDepartment of Laboratory Medicine, Yale University School of Medicine, New Haven, CT, USA.
Nozomi TomimatsuDepartment of Neurosurgery, University of Texas Health Science Center at San Antonio, San Antonio, TX, USA.
Julius O NyalwidheDepartment of Microbiology and Molecular Cell Biology and The Leroy T. Canoles, Jr. Cancer Research Center, Eastern Virginia Medical School, Norfolk, VA, USA.
Eloise DrayDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0000-0001-6793-9838
Amy Verway-CohenBiological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID http://orcid.org/0009-0003-8521-1113
Drew T McDonaldBiological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID http://orcid.org/0000-0003-2544-3193
Bárbara de la Peña AvalosDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0000-0001-9796-8015
Wenjing LiDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0000-0001-9151-9219
Ane Olazabal HerreroDepartment of Oncology, Lombardi Comprehensive Cancer Center, Georgetown University Medical Center, Washington, DC, USA.
O'Taveon FitzgeraldDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.
Alexander B TaylorDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0000-0003-3517-6033
Youngho KwonDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0000-0002-0287-8795
Oliver J SemmesDepartment of Microbiology and Molecular Cell Biology and The Leroy T. Canoles, Jr. Cancer Research Center, Eastern Virginia Medical School, Norfolk, VA, USA.
Miaw-Sheue TsaiBiological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID http://orcid.org/0000-0003-3239-5724
Manjeet RaoGreehey Children's Cancer Research Institute, University of Texas Health at San Antonio, San Antonio, TX, USA.
Robert HromasDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.
Sandeep BurmaDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0000-0001-7057-9845
Yidong ChenGreehey Children's Cancer Research Institute, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0000-0001-6806-2185
Alexander V MazinDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.
Elizabeth WasmuthDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.
Shaun K OlsenDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0000-0002-1265-7101
Daohong ZhouDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA.ORCID http://orcid.org/0000-0002-2400-6461
Alexander J R BishopGreehey Children's Cancer Research Institute, University of Texas Health at San Antonio, San Antonio, TX, USA. alex.bishop@nationwidechildrens.org.ORCID http://orcid.org/0000-0002-5742-4387
Weixing ZhaoDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA. zhaow2@uthscsa.edu.ORCID http://orcid.org/0000-0001-5746-3696
Gary M KupferDepartment of Oncology, Lombardi Comprehensive Cancer Center, Georgetown University Medical Center, Washington, DC, USA. Gary.Kupfer@georgetown.edu.ORCID http://orcid.org/0000-0002-3988-2894
Patrick SungDepartment of Biochemistry and Structural Biology, University of Texas Health at San Antonio, San Antonio, TX, USA. sungp@uthscsa.edu.ORCID http://orcid.org/0000-0003-1396-9040

Funding

Transcription-Coupled & Replication-Associated Excision RepairP01CA092584 · NCI · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI John A. Tainer · 2001 to 2026
$89.6M
Regulation of BRCA-dependent Genome Repair via the 53BP1 AxisP01CA275717 · NCI · UNIVERSITY OF TEXAS HLTH SCIENCE CENTER · PI Patrick Sung · 2024 to 2026
$10.1M
YEAST DNA REPAIR GENES AND PROTEINS OF THE RAD52 GROUPR01ES007061 · NIEHS · YALE UNIVERSITY · PI Patrick Sung · 1995 to 2026
$9.4M
Mechanisms of DNA Homology-directed Genome Repair and Tumor SuppressionR35CA241801 · NCI · UNIVERSITY OF TEXAS HLTH SCIENCE CENTER · PI SUNG, PATRICK · 2019 to 2025
$6.0M
Mechanistic Dissection of the Fanconi Anemia Pathway of DNA Damage Response and RR01CA168635 · NCI · YALE UNIVERSITY · PI Gary M Kupfer, Patrick Sung · 2013 to 2026
$5.8M
Mechanisms of RNA-dependent DNA repair in humansR01GM136717 · NIGMS · UNIVERSITY OF TEXAS HLTH SCIENCE CENTER · PI MAZIN, ALEXANDER V · 2020 to 2023
$1.8M
BRCA-dependent Mechanisms of Genome Maintenance and RepairR50CA265315 · NCI · UNIVERSITY OF TEXAS HLTH SCIENCE CENTER · PI YOUNGHO KWON · 2022 to 2026
$818k
NCI NIH HHS P01 CA092584NCI NIH HHS P01 CA275717NCI NIH HHS R01 CA168635NCI NIH HHS R35 CA241801NCI NIH HHS R50 CA265315NIEHS NIH HHS R01 ES007061NIGMS NIH HHS R01 GM136717
6 · The paper itself

Abstract

Senataxin (SETX), an RNA-DNA helicase, accumulates at transcription pause sites through the tumor suppressor BRCA1. Here, we provide mechanistic insight into how SETX-BRCA1 resolves transcription-associated R-loops to prevent deleterious outcomes. Specifically, we show that full-length SETX unwinds R-loops with broad specificity and that the complex of BRCA1 and its obligatory partner BARD1 binds R-loops and stimulates R-loop unwinding by SETX. BRCA1-BARD1 alleviates the inhibitory effect of RAD52 on SETX-mediated R-loop unwinding. We also demonstrate that phosphorylation of Ser642 in SETX promotes its interaction with BRCA1 through the tandem BRCT domain of the latter. Accordingly, mutations impacting the catalytic domain or Ser642 in SETX lead to R-loop accumulation, transcription-replication conflicts, replication fork stalling and DNA double-strand breaks in human cells. Thus, our results delineate the molecular basis for functional synergy between SETX and BRCA1-BARD1 in R-loop resolution and the mitigation of transcription-replication conflicts to preserve genome integrity.

Indexed as

BRCA1 ProteinDNA ReplicationR-Loop StructuresRNA HelicasesTranscription, GeneticTumor Suppressor ProteinsUbiquitin-Protein LigasesDNA Breaks, Double-StrandedHumansMultifunctional EnzymesMutationPhosphorylationProtein BindingRad52 DNA Repair and Recombination ProteinBARD1 protein, humanBRCA1 ProteinBRCA1 protein, humanMultifunctional EnzymesRad52 DNA Repair and Recombination ProteinRAD52 protein, humanRNA HelicasesTumor Suppressor ProteinsUbiquitin-Protein Ligases

Identifiers

PMID41917467
PMCPMC13231490

What Socratic holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.