Click here to close
Hello! We notice that you are using Internet Explorer, which is not supported by Xenbase and may cause the site to display incorrectly.
We suggest using a current version of Chrome,
FireFox, or Safari.
EMBO J
2012 Aug 29;3117:3564-74. doi: 10.1038/emboj.2012.221.
Show Gene links
Show Anatomy links
Multivalent di-nucleosome recognition enables the Rpd3S histone deacetylase complex to tolerate decreased H3K36 methylation levels.
Huh JW
,
Wu J
,
Lee CH
,
Yun M
,
Gilada D
,
Brautigam CA
,
Li B
.
???displayArticle.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.
Armache,
Structural basis of silencing: Sir3 BAH domain in complex with a nucleosome at 3.0 Å resolution.
2011, Pubmed
Armache,
Structural basis of silencing: Sir3 BAH domain in complex with a nucleosome at 3.0 Å resolution.
2011,
Pubmed
Bonasio,
Molecular signals of epigenetic states.
2010,
Pubmed
Breiling,
The Drosophila polycomb protein interacts with nucleosomal core particles In vitro via its repression domain.
1999,
Pubmed
Canzio,
Chromodomain-mediated oligomerization of HP1 suggests a nucleosome-bridging mechanism for heterochromatin assembly.
2011,
Pubmed
Cao,
Role of histone H3 lysine 27 methylation in Polycomb-group silencing.
2002,
Pubmed
Carrozza,
Stable incorporation of sequence specific repressors Ash1 and Ume6 into the Rpd3L complex.
2005,
Pubmed
Carrozza,
Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription.
2005,
Pubmed
Chu,
Regulation of histone modification and cryptic transcription by the Bur1 and Paf1 complexes.
2007,
Pubmed
Clapier,
Critical role for the histone H4 N terminus in nucleosome remodeling by ISWI.
2001,
Pubmed
,
Xenbase
Dechassa,
Architecture of the SWI/SNF-nucleosome complex.
2008,
Pubmed
,
Xenbase
Dorigo,
Chromatin fiber folding: requirement for the histone H4 N-terminal tail.
2003,
Pubmed
,
Xenbase
Drouin,
DSIF and RNA polymerase II CTD phosphorylation coordinate the recruitment of Rpd3S to actively transcribed genes.
2010,
Pubmed
Francis,
Chromatin compaction by a polycomb group protein complex.
2004,
Pubmed
Govind,
Phosphorylated Pol II CTD recruits multiple HDACs, including Rpd3C(S), for methylation-dependent deacetylation of ORF nucleosomes.
2010,
Pubmed
Grant,
Yeast Gcn5 functions in two multisubunit complexes to acetylate nucleosomal histones: characterization of an Ada complex and the SAGA (Spt/Ada) complex.
1997,
Pubmed
Hammoud,
Distinctive chromatin in human sperm packages genes for embryo development.
2009,
Pubmed
Henikoff,
Histone modification: cause or cog?
2011,
Pubmed
Joshi,
Eaf3 chromodomain interaction with methylated H3-K36 links histone deacetylation to Pol II elongation.
2005,
Pubmed
Kaufman,
Chromatin as a potential carrier of heritable information.
2010,
Pubmed
Keogh,
Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex.
2005,
Pubmed
Koerber,
Interaction of transcriptional regulators with specific nucleosomes across the Saccharomyces genome.
2009,
Pubmed
Kouzarides,
Chromatin modifications and their function.
2007,
Pubmed
Lee,
Proteomic analysis of chromatin-modifying complexes in Saccharomyces cerevisiae identifies novel subunits.
2004,
Pubmed
Lee,
Histone acetyltransferase complexes: one size doesn't fit all.
2007,
Pubmed
Li,
Preferential occupancy of histone variant H2AZ at inactive promoters influences local histone modifications and chromatin remodeling.
2005,
Pubmed
Li,
The role of chromatin during transcription.
2007,
Pubmed
Li,
Combined action of PHD and chromo domains directs the Rpd3S HDAC to transcribed chromatin.
2007,
Pubmed
Li,
Infrequently transcribed long genes depend on the Set2/Rpd3S pathway for accurate transcription.
2007,
Pubmed
Li,
Cross-talk between histone H3 tails produces cooperative nucleosome acetylation.
2008,
Pubmed
Li,
Histone H3 lysine 36 dimethylation (H3K36me2) is sufficient to recruit the Rpd3s histone deacetylase complex and to repress spurious transcription.
2009,
Pubmed
,
Xenbase
Makde,
Structure of RCC1 chromatin factor bound to the nucleosome core particle.
2010,
Pubmed
,
Xenbase
Martino,
Reconstitution of yeast silent chromatin: multiple contact sites and O-AADPR binding load SIR complexes onto nucleosomes in vitro.
2009,
Pubmed
Moazed,
Mechanisms for the inheritance of chromatin states.
2011,
Pubmed
Mutskov,
Persistent interactions of core histone tails with nucleosomal DNA following acetylation and transcription factor binding.
1998,
Pubmed
Nielsen,
Structure of the HP1 chromodomain bound to histone H3 methylated at lysine 9.
2002,
Pubmed
Padrick,
Arp2/3 complex is bound and activated by two WASP proteins.
2011,
Pubmed
Probst,
Epigenetic inheritance during the cell cycle.
2009,
Pubmed
Ruthenburg,
Recognition of a mononucleosomal histone modification pattern by BPTF via multivalent interactions.
2011,
Pubmed
,
Xenbase
Shao,
Stabilization of chromatin structure by PRC1, a Polycomb complex.
1999,
Pubmed
Shogren-Knaak,
Histone H4-K16 acetylation controls chromatin structure and protein interactions.
2006,
Pubmed
Simon,
The site-specific installation of methyl-lysine analogs into recombinant histones.
2007,
Pubmed
,
Xenbase
Strahl,
The language of covalent histone modifications.
2000,
Pubmed
Thåström,
Nucleosomal locations of dominant DNA sequence motifs for histone-DNA interactions and nucleosome positioning.
2004,
Pubmed
Xu,
A model for mitotic inheritance of histone lysine methylation.
2011,
Pubmed
Youdell,
Roles for Ctk1 and Spt6 in regulating the different methylation states of histone H3 lysine 36.
2008,
Pubmed
Yun,
Readers of histone modifications.
2011,
Pubmed
Yun,
Reconstitution of modified chromatin templates for in vitro functional assays.
2012,
Pubmed
Zee,
In vivo residue-specific histone methylation dynamics.
2010,
Pubmed
