Symmetric dimethylation of H3R2 is a newly identified histone mark that supports euchromatin maintenance.

Abstract:

:The asymmetric dimethylation of histone H3 arginine 2 (H3R2me2a) acts as a repressive mark that antagonizes trimethylation of H3 lysine 4. Here we report that H3R2 is also symmetrically dimethylated (H3R2me2s) by PRMT5 and PRMT7 and present in euchromatic regions. Profiling of H3-tail interactors by SILAC MS revealed that H3R2me2s excludes binding of RBBP7, a central component of co-repressor complexes Sin3a, NURD and PRC2. Conversely H3R2me2s enhances binding of WDR5, a common component of the coactivator complexes MLL, SET1A, SET1B, NLS1 and ATAC. The interaction of histone H3 with WDR5 distinguishes H3R2me2s from H3R2me2a, which impedes the recruitment of WDR5 to chromatin. The crystallographic structure of WDR5 and the H3R2me2s peptide elucidates the molecular determinants of this high affinity interaction. Our findings identify H3R2me2s as a previously unknown mark that keeps genes poised in euchromatin for transcriptional activation upon cell-cycle withdrawal and differentiation in human cells.

journal_name

Nat Struct Mol Biol

authors

Migliori V,Müller J,Phalke S,Low D,Bezzi M,Mok WC,Sahu SK,Gunaratne J,Capasso P,Bassi C,Cecatiello V,De Marco A,Blackstock W,Kuznetsov V,Amati B,Mapelli M,Guccione E

doi

10.1038/nsmb.2209

subject

Has Abstract

pub_date

2012-01-08 00:00:00

pages

136-44

issue

2

eissn

1545-9993

issn

1545-9985

pii

nsmb.2209

journal_volume

19

pub_type

杂志文章
  • Synaptic vesicle fusion.

    abstract::The core of the neurotransmitter release machinery is formed by SNARE complexes, which bring the vesicle and plasma membranes together and are key for fusion, and by Munc18-1, which controls SNARE-complex formation and may also have a direct role in fusion. In addition, SNARE complex assembly is likely orchestrated by...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章,评审

    doi:10.1038/nsmb.1450

    authors: Rizo J,Rosenmund C

    更新日期:2008-07-01 00:00:00

  • Identification and evolution of dual-topology membrane proteins.

    abstract::Integral membrane proteins are generally believed to have unique membrane topologies. However, it has been suggested that dual-topology proteins that adopt a mixture of two opposite orientations in the membrane may exist. Here we show that the membrane orientations of five dual-topology candidates identified in Escher...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb1057

    authors: Rapp M,Granseth E,Seppälä S,von Heijne G

    更新日期:2006-02-01 00:00:00

  • Interaction between the keratin cytoskeleton and eEF1Bgamma affects protein synthesis in epithelial cells.

    abstract::Eukaryotic elongation factor-1 (eEF1) is essential for peptide-chain elongation during translation. We report that its gamma subunit (eEF1Bgamma) specifically binds, and bundles, keratin intermediate filaments. Disrupting this interaction depresses translation by approximately 20% and selectively increases 80S ribosom...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb1301

    authors: Kim S,Kellner J,Lee CH,Coulombe PA

    更新日期:2007-10-01 00:00:00

  • Synaptotagmin arrests the SNARE complex before triggering fast, efficient membrane fusion in response to Ca2+.

    abstract::Neuronal communication is mediated by Ca(2+)-triggered fusion of transmitter-filled synaptic vesicles with the presynaptic plasma membrane. Synaptotagmin I functions as a Ca(2+) sensor that regulates exocytosis, whereas soluble N-ethylmaleimide-sensitive factor attachment protein (SNAP) receptor (SNARE) proteins in th...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1463

    authors: Chicka MC,Hui E,Liu H,Chapman ER

    更新日期:2008-08-01 00:00:00

  • A molecular mechanism for calcium-mediated synaptotagmin-triggered exocytosis.

    abstract::The regulated exocytotic release of neurotransmitter and hormones is accomplished by a complex protein machinery whose core consists of SNARE proteins and the calcium sensor synaptotagmin-1. We propose a mechanism in which the lipid membrane is intimately involved in coupling calcium sensing to release. We found that ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-018-0130-9

    authors: Kiessling V,Kreutzberger AJB,Liang B,Nyenhuis SB,Seelheim P,Castle JD,Cafiso DS,Tamm LK

    更新日期:2018-10-01 00:00:00

  • Human CWC22 escorts the helicase eIF4AIII to spliceosomes and promotes exon junction complex assembly.

    abstract::The exon-junction complex (EJC) functionally links splicing to subsequent mRNA localization, translation and stability. Sequence-independent binding of the EJC core to RNA is ensured by the DEAD-box helicase eIF4AIII. Here, we identified the splicing factor CWC22 as a new eIF4AIII partner in flies and humans. CWC22 co...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2380

    authors: Barbosa I,Haque N,Fiorini F,Barrandon C,Tomasetto C,Blanchette M,Le Hir H

    更新日期:2012-10-01 00:00:00

  • Global analysis of yeast mRNPs.

    abstract::Proteins regulate gene expression by controlling mRNA biogenesis, localization, translation and decay. Identifying the composition, diversity and function of mRNA-protein complexes (mRNPs) is essential to understanding these processes. In a global survey of Saccharomyces cerevisiae mRNA-binding proteins, we identified...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2468

    authors: Mitchell SF,Jain S,She M,Parker R

    更新日期:2013-01-01 00:00:00

  • Structural basis of the proinflammatory signaling complex mediated by TSLP.

    abstract::Thymic stromal lymphopoietin (TSLP), a cytokine produced by epithelial cells at barrier surfaces, is pivotal for the development of widespread chronic inflammatory disorders such as asthma and atopic dermatitis. The structure of the mouse TSLP-mediated signaling complex reveals how TSLP establishes extensive interface...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2794

    authors: Verstraete K,van Schie L,Vyncke L,Bloch Y,Tavernier J,Pauwels E,Peelman F,Savvides SN

    更新日期:2014-04-01 00:00:00

  • Genome-wide CTCF distribution in vertebrates defines equivalent sites that aid the identification of disease-associated genes.

    abstract::Many genomic alterations associated with human diseases localize in noncoding regulatory elements located far from the promoters they regulate, making it challenging to link noncoding mutations or risk-associated variants with target genes. The range of action of a given set of enhancers is thought to be defined by in...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2059

    authors: Martin D,Pantoja C,Fernández Miñán A,Valdes-Quezada C,Moltó E,Matesanz F,Bogdanović O,de la Calle-Mustienes E,Domínguez O,Taher L,Furlan-Magaril M,Alcina A,Cañón S,Fedetz M,Blasco MA,Pereira PS,Ovcharenko I,Recillas-Tar

    更新日期:2011-06-01 00:00:00

  • A processed noncoding RNA regulates an altruistic bacterial antiviral system.

    abstract::The ≥ 10³⁰ bacteriophages on Earth relentlessly drive adaptive coevolution, forcing the generation of protective mechanisms in their bacterial hosts. One such bacterial phage-resistance system, ToxIN, consists of a protein toxin (ToxN) that is inhibited in vivo by a specific RNA antitoxin (ToxI); however, the mechanis...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1981

    authors: Blower TR,Pei XY,Short FL,Fineran PC,Humphreys DP,Luisi BF,Salmond GP

    更新日期:2011-02-01 00:00:00

  • Structural basis for STAT2 suppression by flavivirus NS5.

    abstract::Suppressing cellular signal transducers of transcription 2 (STAT2) is a common strategy that viruses use to establish infections, yet the detailed mechanism remains elusive, owing to a lack of structural information about the viral-cellular complex involved. Here, we report the cryo-EM and crystal structures of human ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-020-0472-y

    authors: Wang B,Thurmond S,Zhou K,Sánchez-Aparicio MT,Fang J,Lu J,Gao L,Ren W,Cui Y,Veit EC,Hong H,Evans MJ,O'Leary SE,García-Sastre A,Zhou ZH,Hai R,Song J

    更新日期:2020-10-01 00:00:00

  • The SINE-encoded mouse B2 RNA represses mRNA transcription in response to heat shock.

    abstract::Cells respond to changes in environmental conditions via orchestrated modifications in gene expression. For example, in response to heat shock, cells execute a program of gene-specific transcriptional activation and repression. Although the activation of genes upon heat shock has been widely studied, the mechanism of ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb813

    authors: Allen TA,Von Kaenel S,Goodrich JA,Kugel JF

    更新日期:2004-09-01 00:00:00

  • Biological basis for restriction of microRNA targets to the 3' untranslated region in mammalian mRNAs.

    abstract::MicroRNAs (miRNAs) interact with target sites located in the 3' untranslated regions (3' UTRs) of mRNAs to downregulate their expression when the appropriate miRNA is bound to target mRNA. To establish the functional importance of target-site localization in the 3' UTR, we modified the stop codon to extend the coding ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1552

    authors: Gu S,Jin L,Zhang F,Sarnow P,Kay MA

    更新日期:2009-02-01 00:00:00

  • Structure of an aprataxin-DNA complex with insights into AOA1 neurodegenerative disease.

    abstract::DNA ligases finalize DNA replication and repair through DNA nick-sealing reactions that can abort to generate cytotoxic 5'-adenylation DNA damage. Aprataxin (Aptx) catalyzes direct reversal of 5'-adenylate adducts to protect genome integrity. Here the structure of a Schizosaccharomyces pombe Aptx-DNA-AMP-Zn(2+) comple...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2146

    authors: Tumbale P,Appel CD,Kraehenbuehl R,Robertson PD,Williams JS,Krahn J,Ahel I,Williams RS

    更新日期:2011-10-09 00:00:00

  • T-cell receptor recognition of HLA-DQ2-gliadin complexes associated with celiac disease.

    abstract::Celiac disease is a T cell-mediated disease induced by dietary gluten, a component of which is gliadin. 95% of individuals with celiac disease carry the HLA (human leukocyte antigen)-DQ2 locus. Here we determined the T-cell receptor (TCR) usage and fine specificity of patient-derived T-cell clones specific for two epi...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2817

    authors: Petersen J,Montserrat V,Mujico JR,Loh KL,Beringer DX,van Lummel M,Thompson A,Mearin ML,Schweizer J,Kooy-Winkelaar Y,van Bergen J,Drijfhout JW,Kan WT,La Gruta NL,Anderson RP,Reid HH,Koning F,Rossjohn J

    更新日期:2014-05-01 00:00:00

  • Constitutive splicing and economies of scale in gene expression.

    abstract::In eukaryotic cells, many introns are constitutively, rather than alternatively, spliced and therefore do not contribute to isoform diversification. It has remained unclear what functional roles such constitutive splicing provides. To explore this issue, we asked how splicing affects the efficiency with which individu...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-019-0226-x

    authors: Ding F,Elowitz MB

    更新日期:2019-06-01 00:00:00

  • Adenine riboswitches and gene activation by disruption of a transcription terminator.

    abstract::A class of riboswitches that recognizes guanine and discriminates against other purine analogs was recently identified. RNAs that carry the consensus sequence and structural features of guanine riboswitches are located in the 5' untranslated region (UTR) of numerous prokaryotic genes, where they control the expression...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb710

    authors: Mandal M,Breaker RR

    更新日期:2004-01-01 00:00:00

  • A phospho-BAD BH3 helix activates glucokinase by a mechanism distinct from that of allosteric activators.

    abstract::Glucokinase (GK) is a glucose-phosphorylating enzyme that regulates insulin release and hepatic metabolism, and its loss of function is implicated in diabetes pathogenesis. GK activators (GKAs) are attractive therapeutics in diabetes; however, clinical data indicate that their benefits can be offset by hypoglycemia, o...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2717

    authors: Szlyk B,Braun CR,Ljubicic S,Patton E,Bird GH,Osundiji MA,Matschinsky FM,Walensky LD,Danial NN

    更新日期:2014-01-01 00:00:00

  • Clathrin-coat disassembly illuminates the mechanisms of Hsp70 force generation.

    abstract::Hsp70s use ATP hydrolysis to disrupt protein-protein associations and to move macromolecules. One example is the Hsc70- mediated disassembly of the clathrin coats that form on vesicles during endocytosis. Here, we exploited the exceptional features of these coats to test three models-Brownian ratchet, power-stroke and...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.3272

    authors: Sousa R,Liao HS,Cuéllar J,Jin S,Valpuesta JM,Jin AJ,Lafer EM

    更新日期:2016-09-01 00:00:00

  • An assessment of histone-modification antibody quality.

    abstract::We have tested the specificity and utility of more than 200 antibodies raised against 57 different histone modifications in Drosophila melanogaster, Caenorhabditis elegans and human cells. Although most antibodies performed well, more than 25% failed specificity tests by dot blot or western blot. Among specific antibo...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1972

    authors: Egelhofer TA,Minoda A,Klugman S,Lee K,Kolasinska-Zwierz P,Alekseyenko AA,Cheung MS,Day DS,Gadel S,Gorchakov AA,Gu T,Kharchenko PV,Kuan S,Latorre I,Linder-Basso D,Luu Y,Ngo Q,Perry M,Rechtsteiner A,Riddle NC,Schwar

    更新日期:2011-01-01 00:00:00

  • A metazoan ortholog of SpoT hydrolyzes ppGpp and functions in starvation responses.

    abstract::In nutrient-starved bacteria, RelA and SpoT proteins have key roles in reducing cell growth and overcoming stresses. Here we identify functional SpoT orthologs in metazoa (named Mesh1, encoded by HDDC3 in human and Q9VAM9 in Drosophila melanogaster) and reveal their structures and functions. Like the bacterial enzyme,...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1906

    authors: Sun D,Lee G,Lee JH,Kim HY,Rhee HW,Park SY,Kim KJ,Kim Y,Kim BY,Hong JI,Park C,Choy HE,Kim JH,Jeon YH,Chung J

    更新日期:2010-10-01 00:00:00

  • The opening of the two pores of the Hv1 voltage-gated proton channel is tuned by cooperativity.

    abstract::In voltage-gated sodium, potassium and calcium channels, the functions of ion conduction and voltage sensing are performed by two distinct structural units: the pore domain and the voltage-sensing domain (VSD). In the hydrogen voltage-gated channel 1 (Hv1), the VSD, unusually, performs both functions. Hv1 was recently...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1738

    authors: Tombola F,Ulbrich MH,Kohout SC,Isacoff EY

    更新日期:2010-01-01 00:00:00

  • The structure of CCT-Hsc70 NBD suggests a mechanism for Hsp70 delivery of substrates to the chaperonin.

    abstract::Chaperones, a group of proteins that assist the folding of other proteins, seem to work in a coordinated manner. Two major chaperone families are heat-shock protein families Hsp60 and Hsp70. Here we show for the first time the formation of a stable complex between chaperonin-containing TCP-1 (CCT) and Hsc70, two eukar...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1464

    authors: Cuéllar J,Martín-Benito J,Scheres SH,Sousa R,Moro F,López-Viñas E,Gómez-Puertas P,Muga A,Carrascosa JL,Valpuesta JM

    更新日期:2008-08-01 00:00:00

  • The stalk region of dynamin drives the constriction of dynamin tubes.

    abstract::The GTPase dynamin is essential for numerous vesiculation events including clathrin-mediated endocytosis. Upon GTP hydrolysis, dynamin constricts a lipid bilayer. Previously, a three-dimensional structure of mutant dynamin in the constricted state was determined by helical reconstruction methods. We solved the noncons...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb762

    authors: Chen YJ,Zhang P,Egelman EH,Hinshaw JE

    更新日期:2004-06-01 00:00:00

  • Cotranscriptional coupling of splicing factor recruitment and precursor messenger RNA splicing in mammalian cells.

    abstract::Coupling between transcription and RNA processing is a key gene regulatory mechanism. Here we use chromatin immunoprecipitation to detect transcription-dependent accumulation of the precursor mRNA (pre-mRNA) splicing factors hnRNP A1, U2AF65 and U1 and U5 snRNPs on the intron-containing human FOS gene. These factors w...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb1135

    authors: Listerman I,Sapra AK,Neugebauer KM

    更新日期:2006-09-01 00:00:00

  • Molecular recognition of histone H3 by the WD40 protein WDR5.

    abstract::The WD40-repeat protein WDR5 is a conserved subunit of Trithorax (TRX) histone methyltransferase complexes. WDR5 has been reported to selectively bind dimethylated Lys4 (K4me2) in histone H3 to promote K4 trimethylation by TRX. To elucidate the basis of this binding specificity, we have determined the crystal structur...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb1116

    authors: Couture JF,Collazo E,Trievel RC

    更新日期:2006-08-01 00:00:00

  • Vps4 disassembles an ESCRT-III filament by global unfolding and processive translocation.

    abstract::The AAA+ ATPase Vps4 disassembles ESCRT-III and is essential for HIV-1 budding and other pathways. Vps4 is a paradigmatic member of a class of hexameric AAA+ ATPases that disassemble protein complexes without degradation. To distinguish between local displacement versus global unfolding mechanisms for complex disassem...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.3015

    authors: Yang B,Stjepanovic G,Shen Q,Martin A,Hurley JH

    更新日期:2015-06-01 00:00:00

  • Substrate-specific structural rearrangements of human Dicer.

    abstract::Dicer has a central role in RNA-interference pathways by cleaving double-stranded RNAs (dsRNAs) to produce small regulatory RNAs. Human Dicer can process long double-stranded and hairpin precursor RNAs to yield short interfering RNAs (siRNAs) and microRNAs (miRNAs), respectively. Previous studies have shown that pre-m...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2564

    authors: Taylor DW,Ma E,Shigematsu H,Cianfrocco MA,Noland CL,Nagayama K,Nogales E,Doudna JA,Wang HW

    更新日期:2013-06-01 00:00:00

  • Structure-function analyses of the human SIX1-EYA2 complex reveal insights into metastasis and BOR syndrome.

    abstract::SIX1 interacts with EYA to form a bipartite transcription factor essential for mammalian development. Loss of function of this complex causes branchio-oto-renal (BOR) syndrome, whereas re-expression of SIX1 or EYA promotes metastasis. Here we describe the 2.0-Å structure of SIX1 bound to EYA2, which suggests a new DNA...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2505

    authors: Patrick AN,Cabrera JH,Smith AL,Chen XS,Ford HL,Zhao R

    更新日期:2013-04-01 00:00:00

  • Dynamically driven protein allostery.

    abstract::Allosteric interactions are typically considered to proceed through a series of discrete changes in bonding interactions that alter the protein conformation. Here we show that allostery can be mediated exclusively by transmitted changes in protein motions. We have characterized the negatively cooperative binding of cA...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb1132

    authors: Popovych N,Sun S,Ebright RH,Kalodimos CG

    更新日期:2006-09-01 00:00:00