Multivalent di-nucleosome recognition enables the Rpd3S histone deacetylase complex to tolerate decreased H3K36 methylation levels

Jae Wan Huh, Jun Wu, Chul Hwan Lee, Miyong Yun, Daniel Gilada, Chad A Brautigam, Bing Li

Research output: Contribution to journalArticle

24 Citations (Scopus)

Abstract

The Rpd3S histone deacetylase complex represses cryptic transcription initiation within coding regions by maintaining the hypo-acetylated state of transcribed chromatin. Rpd3S recognizes methylation of histone H3 at lysine 36 (H3K36me), which is required for its deacetylation activity. Rpd3S is able to function over a wide range of H3K36me levels, making this a unique system to examine how chromatin regulators tolerate the reduction of their recognition signal. Here, we demonstrated that Rpd3S makes histone modification-independent contacts with nucleosomes, and that Rpd3S prefers di-nucleosome templates since two binding surfaces can be readily accessed simultaneously. Importantly, this multivalent mode of interaction across two linked nucleosomes allows Rpd3S to tolerate a two-fold intramolecular reduction of H3K36me. Our data suggest that chromatin regulators utilize an intrinsic di-nucleosome-recognition mechanism to prevent compromised function when their primary recognition modifications are diluted.

Original languageEnglish (US)
Pages (from-to)3564-3574
Number of pages11
JournalEMBO Journal
Volume31
Issue number17
DOIs
StatePublished - Aug 29 2012

Fingerprint

Methylation
Histone Deacetylases
Nucleosomes
Chromatin
Histones
Histone Code
Transcription
Lysine

Keywords

  • chromatin recognition
  • di-nucleosome
  • epigenetics
  • HDAC

ASJC Scopus subject areas

  • Molecular Biology
  • Biochemistry, Genetics and Molecular Biology(all)
  • Immunology and Microbiology(all)
  • Neuroscience(all)

Cite this

Multivalent di-nucleosome recognition enables the Rpd3S histone deacetylase complex to tolerate decreased H3K36 methylation levels. / Huh, Jae Wan; Wu, Jun; Lee, Chul Hwan; Yun, Miyong; Gilada, Daniel; Brautigam, Chad A; Li, Bing.

In: EMBO Journal, Vol. 31, No. 17, 29.08.2012, p. 3564-3574.

Research output: Contribution to journalArticle

Huh, Jae Wan ; Wu, Jun ; Lee, Chul Hwan ; Yun, Miyong ; Gilada, Daniel ; Brautigam, Chad A ; Li, Bing. / Multivalent di-nucleosome recognition enables the Rpd3S histone deacetylase complex to tolerate decreased H3K36 methylation levels. In: EMBO Journal. 2012 ; Vol. 31, No. 17. pp. 3564-3574.
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