CoChat
Sign Up
PreprintCited by 31DNA Repair MechanismsGenomics and Chromatin DynamicsNuclear Structure and Function

The DOI matches its Crossref record; 1 of the 1 references it cites were found in a registry or an index.

STK19 is a transcription-coupled repair factor that participates in UVSSA ubiquitination and TFIIH loading

Open access
Tan, Yuanqing, Gao, Meng, Huang, Yanchao, Zhan, Delin, Wu, Sizhong, An, Jiao, Zhang, Xiping, Hu, Jinchuan·2024·Nucleic Acids Research
DOI 10.1101/2024.07.17.604011PMC PMC11602130

Preprint — published as 10.1093/nar/gkae787 · Paper page

Open this paper in CoChat — free accountOpen PDF

Abstract

Transcription-coupled repair (TCR) is the major pathway to remove transcription-blocking lesions. Although discovered for nearly 40 years, the mechanism and critical players of mammalian TCR remain unclear. STK19 is a factor affecting cell survival and recovery of RNA synthesis in response to DNA damage, however, whether it is a necessary component for TCR is unknown. Here we demonstrated that STK19 is essential for human TCR. Mechanistically, STK19 is recruited to damage sites through direct interaction with CSA. It can also interact with RNA polymerase II in vitro . Once recruited, STK19 plays an important role in UVSSA ubiquitination which is needed for TCR. STK19 also promotes TCR independent of UVSSA ubiquitination by stimulating TFIIH recruitment through its direct interaction with TFIIH. In summary, our results suggest that STK19 is a key factor of human TCR that links CSA, UVSSA ubiquitination and TFIIH loading, shedding light on the molecular mechanisms of TCR.

Overview

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1101/2024.07.17.604011

Cites

1 of 1 references verified0 citation errors · 0 not checkable

Statistics

Verification

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Citations

Cites

Flagged first, then by citations

Research works printed but not linked: 63

  1. 2016, Mechanisms of DNA Repair by Photolyase and Excision Nuclease (Nobel Lecture), Angew Chem Int Edit, 55, 8502, 10.1002/anie.201601524 · DOI
  2. 10.1038/s41586-021-04133-7 · DOI
  3. 10.3724/abbs.2022054 · DOI
  4. 10.1146/annurev-biochem-052621-091205 · DOI
  5. Selby, C.P. , Lindsey-Boltz, L.A. , Li, W. and Sancar, A . (2023) Molecular Mechanisms of Transcription-Coupled Repair. Annu Rev Biochem. · DOI
  6. Luo, Y.F. , Li, J. , Li, X.M. , Lin, H.D. , Mao, Z.C. , Xu, Z.Z. , Li, S.W. , Nie, C. , Zhou, X.A. , Liao, J.W. et al. (2024) The ARK2N-CK2 complex initiates transcription-coupled repair through enhancing the interaction of CSB with lesion-stalled RNAPII. P Natl Acad Sci USA, 121. · DOI
  7. 10.1038/nature24658 · DOI
  8. 10.1016/j.dnarep.2015.09.006 · DOI
  9. 10.1016/j.mad.2013.03.008 · DOI
  10. 10.1038/s41586-021-03906-4 · DOI
  11. 10.1038/ng.2228 · DOI · Paper page
  12. 10.1038/ng.2230 · DOI · Paper page
  13. 10.1038/ng.2229 · DOI
  14. 10.1038/s41467-020-15903-8 · DOI
  15. 10.1016/j.tcb.2021.02.007 · DOI
  16. 10.1038/s41556-021-00688-9 · DOI · Paper page
  17. 10.1038/s41556-021-00692-z · DOI
  18. 10.1016/j.cell.2020.02.009 · DOI
  19. 10.1016/j.cell.2020.02.010 · DOI
  20. Kokic, G. , Yakoub, G. , van den Heuvel, D. , Wondergem, A.P. , van der Meer, P.J. , van der Weegen, Y. , Chernev, A. , Fianu, I. , Fokkens, T.J. , Lorenz, S. , et al. (2024) Structural basis for RNA polymerase II ubiquitylation and inactivation in transcription-coupled repair. Nat Struct Mol Biol. · DOI
  21. 2016, Multiomic Analysis of the UV-Induced DNA Damage Response, Cell Reports, 15, 1597, 10.1016/j.celrep.2016.04.047 · DOI
  22. 10.1016/j.cell.2020.05.040 · DOI · Paper page
  23. 10.1016/j.cell.2019.01.002 · DOI
  24. 2024, STK19 is a DNA/RNA-binding protein critical for DNA damage repair and cell proliferation, J Cell Biol, 223, e202301090, 10.1083/jcb.202301090 · DOI
  25. 2020, Evidence That STK19 Is Not an NRAS-dependent Melanoma Driver, Cell, 181, 1395, 10.1016/j.cell.2020.04.014 · DOI
  26. Zhu, Y. , Zhang, X. , Gao, M. , Huang, Y. , Tan, Y. , Parnas, A. , Wu, S. , Zhan, D. , Adar, S. and Hu, J . (2024) Coordination of transcription-coupled repair and repair-independent release of stalled RNA polymerase II in response to transcription-blocking lesions. bioRxiv, 2024.2007.2007.602436. · DOI
  27. 10.1038/nprot.2013.143 · DOI · Paper page
  28. 2019, Analysis of RNA polymerase II ubiquitylation and proteasomal degradation, Methods, 159, 146
  29. 1996, A new method for continual quantitation of viable cells on endothelialized polyurethanes, J Biomater Sci Polym Ed, 7, 881, 10.1163/156856296X00057 · DOI
  30. 2024, Transcription-coupled repair of DNA-protein cross-links depends on CSA and CSB, Nat Cell Biol, 26, 797, 10.1038/s41556-024-01391-1 · DOI
  31. Park, J.-M. and Kang, T.-H . (2015) DNA Slot Blot Repair Assay. Bio-Protocol, 5. · DOI
  32. 2022, A new technique for genome-wide mapping of nucleotide excision repair without immunopurification of damaged DNA, J Biol Chem, 298, 101863, 10.1016/j.jbc.2022.101863 · DOI
  33. 10.1038/s41596-018-0093-7 · DOI
  34. Wu, S.Z. , Huang, Y.C. , Selby, C.P. , Gao, M. , Sancar, A. and Hu, J.C . (2022) A new technique for genome-wide mapping of nucleotide excision repair without immunopurification of damaged DNA. Journal of Biological Chemistry, 298. · DOI
  35. 10.1073/pnas.1706522114 · DOI
  36. 10.1073/pnas.1614430113 · DOI
  37. 2023, Genome-wide mapping of protein-DNA damage interaction by PADD-seq, Nucleic Acids Res, 51, e32, 10.1093/nar/gkad008 · DOI
  38. Zhu, Y.C. , Tan, Y.Q. , Li, L. , Xiang, Y.N. , Huang, Y.C. , Zhang, X.P. , Yin, J.Y. , Li, J. , Lan, F. , Qian, M.X. et al. (2023) Genome-wide mapping of protein-DNA damage interaction by PADD-seq. Nucleic Acids Res, 51. · DOI
  39. 2021, Structural insights into preinitiation complex assembly on core promoters, Science, 372, 480
  40. 2011, Cutadapt removes adapter sequences from high-throughput sequencing reads, EMBnet.journal, 17, 10, 10.14806/ej.17.1.200 · DOI · Paper page
  41. 10.1093/bioinformatics/btp324 · DOI · Paper page
  42. 10.1093/bioinformatics/btp352 · DOI · Paper page
  43. 10.1093/bioinformatics/btv098 · DOI
  44. 10.1093/bioinformatics/btq033 · DOI · Paper page
  45. 10.1038/nbt.1754 · DOI · Paper page
  46. 10.1093/nar/gkw257 · DOI · Paper page
  47. 10.1093/bioinformatics/btt656 · DOI · Paper page
  48. 10.1093/bioinformatics/bty560 · DOI · Paper page
  49. 2024, Improving deep learning protein monomer and complex structure prediction using DeepMSA2 with huge metagenomics data, Nat Methods, 21, 279, 10.1038/s41592-023-02130-4 · DOI
  50. 2024, Accurate structure prediction of biomolecular interactions with AlphaFold 3, Nature, 630, 493, 10.1038/s41586-024-07487-w · DOI · Paper page
  51. 10.1073/pnas.040559697 · DOI
  52. 10.1074/jbc.M113.482257 · DOI
  53. 2020, Next-generation DNA damage sequencing, Chem Soc Rev, 49, 7354, 10.1039/D0CS00647E · DOI · Paper page
  54. 10.1016/0092-8674(85)90150-3 · DOI · Paper page
  55. 10.1016/j.molcel.2017.11.009 · DOI
  56. 10.1038/s41467-021-21520-w · DOI · Paper page
  57. 2023, Active mRNA degradation by EXD2 nuclease elicits recovery of transcription after genotoxic stress, Nat Commun, 14, 341, 10.1038/s41467-023-35922-5 · DOI
  58. 2024, Mutations found in cancer patients compromise DNA binding of the winged helix protein STK19, Sci Rep, 14, 14098, 10.1038/s41598-024-64840-9 · DOI
  59. 10.1016/j.molcel.2008.04.024 · DOI
  60. 10.1093/nar/gkx970 · DOI
  61. 2023, Transcription coupled DNA repair protein UVSSA binds to DNA and RNA: Mapping of nucleic acid interaction sites on human UVSSA, Arch Biochem Biophys, 735, 109515, 10.1016/j.abb.2023.109515 · DOI
  62. 10.1002/humu.21154 · DOI
  63. 2020, Heterogeneity and overlaps in nucleotide excision repair disorders, Clin Genet, 97, 12, 10.1111/cge.13545 · DOI

Metadata

Authors
Tan, Y., Gao, M., Huang, Y., Zhan, D., Wu, S., An, J., Zhang, X., & Hu, J.
Affiliations
Shanghai Medical College of Fudan University (CN)
Corresponding author
Hu, Jinchuan
ORCID
Venue
Nucleic Acids Research
Publisher
openRxiv
Published
2024-07-18
Volume
52
Issue
21
Pages
12767-12783
ISSN
0305-1048 (ISSN-L)
DOI
10.1101/2024.07.17.604011
PMC
PMC11602130
OpenAlex
W4403013225
Cited by
31
References
1
Citations by year
2026: 12 · 2025: 15 · 2024: 4
FWCI
4.21
Type
journal article
Language
en
Open access
Licence
cc-by-nc
Locations
  • Nucleic Acids Research (publishedVersion, cc-by-nc)
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc)
  • PubMed Central (publishedVersion, cc-by-nc)
  • PubMed (publishedVersion)
Funders
  • Natural Science Foundation of Shanghai (22ZR1413900)
  • National Natural Science Foundation of China (32271343)
  • National Key Research and Development Program of China (2022YFA1303000)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA Repair Mechanisms
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Nuclear Structure and Function
Keywords
transcription-coupled repair, CSA, RNA polymerase II, DNA damage response, UV-induced DNA damage, protein-protein interaction
MeSH terms
Excision Repair, Carrier Proteins, DNA Damage, DNA Repair, DNA Helicases, DNA-Binding Proteins, Humans, RNA Polymerase II, Transcription Factors, Transcription, Genetic, Protein Serine-Threonine Kinases, Transcription Factor TFIIH, Ubiquitination, HEK293 Cells

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review