Histone deacetylase 4 inhibits NF-κB activation by facilitating IκBα sumoylation
Open accessAbstract
Protein modification by small ubiquitin-like modifier (SUMO) is an important regulatory mechanism for multiple cellular processes. Although the canonical pathway involving the ubiquitylation or phosphorylation of IκBα has been well characterized, little is known about the sumoylation of IκBα in the control of NF-κB activity. Here, we find that histone deacetylase 4 (HDAC4) negatively regulates tumor necrosis factor-alpha- or lipopolysaccharide-triggered NF-κB activation. HDAC4 belongs to the SUMO E3 ligase family and can directly sumoylate IκBα. The cytoplasm location of HDAC4 is essential for IκBα sumoylation. The Cys292 of HDAC4 is a key site for its SUMO E3 ligase activity. The sumoylation of IκBα prevents its polyubiquitination and degradation because these two modifications occur both at the Lys21. Our findings reveal a previously undiscovered role for HDAC4 in the inflammatory response as a SUMO E3 ligase for IκBα sumoylation. Our work provides insight into mechanisms ensuring optimal mediation of the NF-κB pathway.
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.
Integrity signals
Registry
Cites
Statistics
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.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
HDAC4 belongs to the SUMO E3 ligase family and can directly SUMOylate IκBα, AR, LXRα, and MEF2.
“Additionally, HDAC4 belongs to the SUMO E3 ligase family and can directly SUMOylate IκBα, AR, LXRα, and MEF217–20.”
From An HDAC4-specific PROTAC degrader achieves radiation sensitization by enhancing ferroptosis in lung cancer (2026) · cites this paper as [17]
The Results section (‘HDAC4 catalyzes the sumoylation of IκBα’; page not available) reports that HDAC4 directly mediates IκBα SUMOylation as a SUMO E3 ligase. The Introduction and Results also report HDAC4-mediated SUMOylation of LXRα and MEF2, but do not establish that it is direct; no passage found supports AR SUMOylation. (LLM, conf=0.86)
Experimental — accuracy not yet measured
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
Phosphorylation meets ubiquitination: the control of NF-κB activity
Karin, M., & Ben-Neriah, Y. (2000) · Annual Review of Immunology · doi:10.1146/annurev.immunol.18.1.621 · Cited by 4,766 · see citing works
Ghisletti, S., Huang, W., Ogawa, S., Pascual, G., Lin, M.-E., Willson, T. M., Rosenfeld, M. G., & Glass, C. K. (2007) · Molecular Cell · doi:10.1016/j.molcel.2006.11.022 · Cited by 561 · see citing works
Song, H. Y., Rothe, M., & Goeddel, D. V. (1996) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.93.13.6721 · Cited by 414 · see citing works
Lee, J. H., Park, S. M., Kim, O. S., Lee, C. S., Woo, J. H., Park, S. J., Joe, E.-H., & Jou, I. (2009) · Molecular Cell · doi:10.1016/j.molcel.2009.07.021 · Cited by 161 · see citing works
Flagged first, then by citations
Research works printed but not linked: 38
- Aung H.T., Schroder K., Himes S.R., et al (2006). LPS regulates proinflammatory gene expression in macrophages by altering histone deacetylase expression. FASEB J. 20, 1315– 1327. 16816106
- Baeuerle P.A., Baichwal V.R. (1997). NF-κB as a frequent target for immunosuppressive and anti-inflammatory molecules. Adv. Immunol. 65, 111– 137. 9238509
- Chen H., Pei R., Zhu W., et al (2014). An alternative splicing isoform of MITA antagonizes MITA-mediated induction of type I IFNs. J. Immunol. 192, 1162– 1170. 24391220
- Chen L.F., Mu Y., Greene W.C. (2002). Acetylation of RelA at discrete sites regulates distinct nuclear functions of NF-κB. EMBO J. 21, 6539– 6548. 12456660 PMC136963
- Choi S.J., Lee H.C., Kim J.H., et al (2016). HDAC6 regulates cellular viral RNA sensing by deacetylation of RIG-I. EMBO J. 35, 429– 442. 26746851 PMC4755110
- de Zoeten E.F., Wang L., Sai H., et al (2010). Inhibition of HDAC9 increases T regulatory cell function and prevents colitis in mice. Gastroenterology 138, 583– 594. 19879272 PMC3369426
- Deng N., Ye Y., Wang W., et al (2010). Dishevelled interacts with p65 and acts as a repressor of NF-κB-mediated transcription. Cell Res. 20, 1117– 1127. 20628365
- Desterro J.M., Rodriguez M.S., Hay R.T. (1998). SUMO-1 modification of IκBα inhibits NF-κB activation. Mol. Cell 2, 233– 239. 9734360
- Foster S.L., Hargreaves D.C., Medzhitov R. (2007). Gene-specific control of inflammation by TLR-induced chromatin modifications. Nature 447, 972– 978. 17538624
- Gao H., Sun Y., Wu Y., et al (2004). Identification of β-arrestin2 as a G protein-coupled receptor-stimulated regulator of NF-κB pathways. Mol. Cell 14, 303– 317. 15125834
- Gregoire S., Yang X.J. (2005). Association with class IIa histone deacetylases upregulates the sumoylation of MEF2 transcription factors. Mol. Cell. Biol. 25, 2273– 2287. 15743823 PMC1061617
- Grivennikov S.I., Greten F.R., Karin M. (2010). Immunity, inflammation, and cancer. Cell 140, 883– 899. 20303878 PMC2866629
- Grozinger C.M., Schreiber S.L. (2000). Regulation of histone deacetylase 4 and 5 and transcriptional activity by 14-3-3-dependent cellular localization. Proc. Natl Acad. Sci. USA 97, 7835– 7840. 10869435 PMC16631
- Guo M., Pei R.J., Yang Q., et al (2015). Phosphatidylserine-specific phospholipase A1 involved in hepatitis C virus assembly through NS2 complex formation. J. Virol. 89, 2367– 2377. 25505071 PMC4338883
- Harhaj E.W., Dixit V.M. (2011). Deubiquitinases in the regulation of NF-κB signaling. Cell Res. 21, 22– 39. 21119682 PMC3075605
- Kovalenko A., Chable-Bessia C., Cantarella G., et al (2003). The tumour suppressor CYLD negatively regulates NF-κB signalling by deubiquitination. Nature 424, 801– 805. 12917691
- Kracklauer M.P., Schmidt C. (2003). At the crossroads of SUMO and NF-κB. Mol. Cancer 2, 39. 14613580 PMC280695
- Lens Z., Dewitte F., Van Lint C., et al (2011). Purification of SUMO-1 modified IκBα and complex formation with NF-κB. Protein Expr. Purif. 80, 211– 216. 21708266
- Li X., Zhang Q., Ding Y., et al (2016). Methyltransferase Dnmt3a upregulates HDAC9 to deacetylate the kinase TBK1 for activation of antiviral innate immunity. Nat. Immunol. 17, 806– 815. 27240213
- Liu B., Yang Y., Chernishof V., et al (2007). Proinflammatory stimuli induce IKKα-mediated phosphorylation of PIAS1 to restrict inflammation and immunity. Cell 129, 903– 914. 17540171
- Luan B., Goodarzi M.O., Phillips N.G., et al (2014). Leptin-mediated increases in catecholamine signaling reduce adipose tissue inflammation via activation of macrophage HDAC4. Cell Metab. 19, 1058– 1065. 24768298 PMC4207085
- McKinsey T.A., Zhang C.L., Lu J., et al (2000). Signal-dependent nuclear export of a histone deacetylase regulates muscle differentiation. Nature 408, 106– 111. 11081517 PMC4459600
- Meng J., Liu X., Zhang P., et al (2016). Rb selectively inhibits innate IFN-β production by enhancing deacetylation of IFN-β promoter through HDAC1 and HDAC8. J. Autoimmun. 73, 42– 53. 27267461
- Miska E.A., Karlsson C., Langley E., et al (1999). HDAC4 deacetylase associates with and represses the MEF2 transcription factor. EMBO J. 18, 5099– 5107. 10487761 PMC1171580
- Navarro M.N., Goebel J., Feijoo-Carnero C., et al (2011). Phosphoproteomic analysis reveals an intrinsic pathway for the regulation of histone deacetylase 7 that controls the function of cytotoxic T lymphocytes. Nat. Immunol. 12, 352– 361. 21399638 PMC3110993
- Oeckinghaus A., Hayden M.S., Ghosh S. (2011). Crosstalk in NF-κB signaling pathways. Nat. Immunol. 12, 695– 708. 21772278
- Rodriguez M.S., Wright J., Thompson J., et al (1996). Identification of lysine residues required for signal-induced ubiquitination and degradation of IκB-α in vivo. Oncogene 12, 2425– 2435. 8649784
- Shembade N., Pujari R., Harhaj N.S., et al (2011). The kinase IKKα inhibits activation of the transcription factor NF-κB by phosphorylating the regulatory molecule TAX1BP1. Nat. Immunol. 12, 834– 843. 21765415 PMC3205447
- Sosic D., Richardson J.A., Yu K., et al (2003). Twist regulates cytokine gene expression through a negative feedback loop that represses NF-κB activity. Cell 112, 169– 180. 12553906
- Sun S.C. (2008). Deubiquitylation and regulation of the immune response. Nat. Rev. Immunol. 8, 501– 511. 18535581 PMC5763493
- Sun S.C., Ganchi P.A., Ballard D.W., et al (1993). NF-κB controls expression of inhibitor IκBα: evidence for an inducible autoregulatory pathway. Science 259, 1912– 1915. 8096091
- Traenckner E.B., Pahl H.L., Henkel T., et al (1995). Phosphorylation of human IκB-α on serines 32 and 36 controls IκB-α proteolysis and NF-κB activation in response to diverse stimuli. EMBO J. 14, 2876– 2883. 7796813 PMC398406
- Vallabhapurapu S., Karin M. (2009). Regulation and function of NF-κB transcription factors in the immune system. Annu. Rev. Immunol. 27, 693– 733. 19302050
- Xue Y., Zhou F., Fu C., et al (2006). SUMOsp: a web server for sumoylation site prediction. Nucleic Acids Res. 34, W254– W257. 16845005 PMC1538802
- Yamaguchi T., Cubizolles F., Zhang Y., et al (2010). Histone deacetylases 1 and 2 act in concert to promote the G1-to-S progression. Genes Dev. 24, 455– 469. 20194438 PMC2827841
- Yang Q., Tang J., Pei R., et al (2019). Host HDAC4 regulates the antiviral response by inhibiting the phosphorylation of IRF3. J. Mol. Cell Biol. 11, 158– 169. 29800227 PMC6734143
- Zhang C.L., McKinsey T.A., Chang S., et al (2002). Class II histone deacetylases act as signal-responsive repressors of cardiac hypertrophy. Cell 110, 479– 488. 12202037 PMC4459650
- Zhao X., Sternsdorf T., Bolger T.A., et al (2005). Regulation of MEF2 by histone deacetylase 4- and SIRT1 deacetylase-mediated lysine modifications. Mol. Cell. Biol. 25, 8456– 8464. 16166628 PMC1265742
Cited by
Sorted by citations
Cheng, C., Sun, L., Yang, J., Liu, Z., Zhang, F., Qiu, L., Yu, M., Wang, T., Huang, J., Wang, L., et al. (2026) · Nature Communications · doi:10.1038/s41467-026-73682-0
- Authors
- Yang, Q., Tang, J., Xu, C., Zhao, H., Zhou, Y., Wang, Y., Yang, M., Chen, X., & Chen, J.
- Affiliations
- Chinese Academy of Sciences (CN)
- Guangzhou Women and Children Medical Center (CN)
- Corresponding author
- Chen, Jizheng
- Venue
- Journal of Molecular Cell Biology
- Publisher
- Oxford University Press (OUP)
- Published
- 2020-12-01
- Volume
- 12
- Issue
- 12
- Pages
- 933-945
- ISSN
- 1674-2788 (ISSN-L)
- 1759-4685
- PMC
- PMC7948076
- OpenAlex
- W3047935617
- Cited by
- 35
- References
- 4
- Citations by year
- 2026: 7 · 2025: 8 · 2024: 5 · 2023: 7 · 2022: 6 · 2021: 2
- FWCI
- 1.28
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- Journal of Molecular Cell Biology (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Funders
- National Key Research and Development Program of China (2018YFA0507201, 2018YFA0507202)
- Program for Youth Innovation Promotion Association in Chinese Academy of Sciences
- China Postdoctoral Science Foundation (2020M672580)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › NF-κB Signaling Pathways
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Ubiquitin and proteasome pathways
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Keywords
- HDAC4, NF-κB activation, SUMO E3 ligase, SUMO, IκBα degradation, TNF-α, lipopolysaccharide, inflammation, cytoplasmic localization
- MeSH terms
- RAW 264.7 Cells, NF-KappaB Inhibitor alpha, Animals, Histone Deacetylases, Humans, Lipopolysaccharides, Recombinant Proteins, Repressor Proteins, Transfection, Tumor Necrosis Factor-alpha, Signal Transduction, NF-kappa B, Mice, HEK293 Cells, Sumoylation
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