Skip to main content
SpringerLink
Log in

CBP and RAD21 Proteins Bind at the Termini of Forum Domains in Human Chromosomes

  • BIOCHEMISTRY, BIOPHYSICS, AND MOLECULAR BIOLOGY
  • Published:
Doklady Biochemistry and Biophysics Aims and scope Submit manuscript

Abstract

Forum domains are 50–100-kb stretches of DNA delimited by the hotspots of double-strand breaks (DSBs). These domains possess coordinately expressed genes. However, molecular mechanisms of such regulation are not clear. It is assumed that the proteins specifically binding at the termini of domains can be involved in coordinated regulation of expression. In this study, we used the results of precise mapping of hotspots of DSBs and ChIP-Seq data for ten nuclear proteins in HEK293T cell line for a search of proteins specifically binding at forum-domain termini. We detected that two proteins, CBP and RAD24, which are known to be involved in epigenetic regulation of gene expression and formation of 3D chromosomal structures, bind at the termini. We assume that these proteins may be involved in coordinated expression of genes in forum domains.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1.
Fig. 2.

Similar content being viewed by others

REFERENCES

  1. Tchurikov, N.A., Kretova, O.V., Sosin, D.V., Zykov, I.A., Zhimulev, I.F., and Kravatsky, Y.V., Genome-wide profiling of forum domains in Drosophila melanogaster, Nucleic Acids Res., 2011, vol. 39, pp. 3667–3685.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  2. Tchurikov, N., Krasnov, A.N., Ponomarenko, N.A., Golova, Y.B., and Chernov, B.K., Forum domain in Drosophila melanogaster cut locus possesses looped domains inside, Nucleic Acids Res., 1998, vol. 26, pp. 3221–3227.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  3. Tchurikov, N.A., Kretova, O.V., Fedoseeva, D.M., Sosin, D.V., Grachev, S.A., Serebraykova, M.V., Romanenko, S.A., Vorobieva, N.V., and Kravatsky, Y.V., DNA double-strand breaks coupled with PARP1 and HNRNPA2B1 binding sites flank coordinately expressed domains in human chromosomes, PLoS Genet., 2013, vol. 9, p. e1003429.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  4. Dudás, A. and Chovanec, M., DNA double-strand break repair by homologous recombination, Mutat Res., 2004, vol. 566, no. 2, pp. 131–167.

    Article  PubMed  Google Scholar 

  5. Vilenchik, M.M. and Knudson, A.G., Radiation dose-rate effects, endogenous DNA damage, and signaling resonance, Proc. Natl.Acad. Sci. U. S. A., 2006, vol. 103, pp. 17874–17879.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  6. Tchurikov, N.A., Yudkin, D.V., Gorbacheva, M.A., Kulemzina, A.I., Grischenko, I.V., Fedoseeva, D.M., Sosin, D.V., Kravatsky, Y.V., and Kretova, O.V., Hot spots of DNA double-strand breaks in human rDNA units are produced in vivo, Sci. Rep., 2016, vol. 6, p. 25866.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  7. Rinaldi, C., Pizzul, P., Longhese, M.P., and Bonetti, D., Sensing R-loop-associated DNA damage to safeguard genome stability, Front. Cell Dev. Biol., 2021, vol. 8, p. 618157.

    Article  PubMed  PubMed Central  Google Scholar 

  8. Roos, W.P. and Kaina, B., DNA damage-induced cell death by apoptosis, Trends Mol. Med., 2006, vol. 12, no. 9, pp. 440–450.

    Article  CAS  PubMed  Google Scholar 

  9. Stempor, P. and Ahringer, J., SeqPlots-Interactive software for exploratory data analyses, pattern discovery and visualization in genomics, Wellcome Open Res., 2016, vol. 1, p. 14.

    Article  PubMed  PubMed Central  Google Scholar 

  10. Martire, S., Nguyen, J., Sundaresan, A., et al., Differential contribution of p300 and CBP to regulatory element acetylation in mESCs, BMC Mol. Cell Biol., 2020, vol. 21, p. 55.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  11. Cheng, H., Zhang, N., and Pati, D., Cohesin subunit RAD21: from biology to disease, Gene, 2020, vol. 758, p. 144966.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  12. Hoffmann, A. and Roeder, R.G., Cloning and characterization of human TAF20/15. Multiple interactions suggest a central role in TFIID complex formation, J. Biol. Chem., 1996, vol. 271, no. 30, pp. 18194–18202.

    Article  CAS  PubMed  Google Scholar 

  13. Yu, Y. and Reed, R., FUS functions in coupling transcription to splicing by mediating an interaction between RNAP II and U1 snRNP, Proc. Natl. Acad. Sci. U. S. A., 2015, vol. 112, no. 28, pp. 8608–8613.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  14. Sun, Y., Xu, X., Zhao, W., Zhang, Y., Chen, K., Li, Y., Wang, X., Zhang, M., Xue, B., Yu, W., Hou, Y., Wang, C., Xie, W., Li, C., Kong, D., Wang, S., and Sun, Y., RAD21 is the core subunit of the cohesion complex involved in directing genome organization, Genome Biol., 2023, vol. 24, no. 1, p. 155.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  15. Wei, S., Li, C., Yin, Z., Wen, J., Meng, H., Xue, L., and Wang, J., Histone methylation in DNA repair and clinical practice: new findings during the past 5-years, J. Cancer, 2018, vol. 9, no. 12, pp. 2072–2081.

    Article  PubMed  PubMed Central  Google Scholar 

Download references

Funding

The study was supported by the Russian Science Foundation (project no. 22-24-01118).

Author information

Authors and Affiliations

  1. Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia

    N. A. Tchurikov, I. R. Alembekov, E. S. Klushevskaya, P. B. Meilakh, A. N. Kretova, O. D. Managarova, G. I. Kravatskaya & Yu. V. Kravatsky

Authors
  1. N. A. Tchurikov
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. I. R. Alembekov
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. E. S. Klushevskaya
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. P. B. Meilakh
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. A. N. Kretova
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. O. D. Managarova
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. G. I. Kravatskaya
    View author publications

    You can also search for this author in PubMed Google Scholar

  8. Yu. V. Kravatsky
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to N. A. Tchurikov.

Ethics declarations

The authors declare that they have no conflicts of interest. This article does not contain any studies involving animals or human participants performed by any of the authors.

Additional information

Translated by M. Batrukova

Publisher’s Note.

Pleiades Publishing remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Tchurikov, N.A., Alembekov, I.R., Klushevskaya, E.S. et al. CBP and RAD21 Proteins Bind at the Termini of Forum Domains in Human Chromosomes. Dokl Biochem Biophys 513, 337–340 (2023). https://doi.org/10.1134/S1607672923700540

Download citation

  • Received:

  • Revised:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1134/S1607672923700540

Keywords:

Search

Navigation