22 results match your criteria set2 consistent

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An optogenetic switch for the Set2 methyltransferase provides evidence for transcription-dependent and -independent dynamics of H3K36 methylation.

Genome Res 2020 11 5;30(11):1605-1617. Epub 2020 Oct 5.

Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, USA.

Histone H3 lysine 36 methylation (H3K36me) is a conserved histone modification associated with transcription and DNA repair. Although the effects of H3K36 methylation have been studied, the genome-wide dynamics of H3K36me deposition and removal are not known. We established rapid and reversible optogenetic control for Set2, the sole H3K36 methyltransferase in yeast, by fusing the enzyme with the light-activated nuclear shuttle (LANS) domain. Read More

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November 2020

RNA-dependent chromatin association of transcription elongation factors and Pol II CTD kinases.

Elife 2017 05 24;6. Epub 2017 May 24.

Department of Molecular Biology, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany.

For transcription through chromatin, RNA polymerase (Pol) II associates with elongation factors (EFs). Here we show that many EFs crosslink to RNA emerging from transcribing Pol II in the yeast . Most EFs crosslink preferentially to mRNAs, rather than unstable non-coding RNAs. Read More

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RNA Binding by Histone Methyltransferases Set1 and Set2.

Mol Cell Biol 2017 07 29;37(14). Epub 2017 Jun 29.

Wellcome Trust Centre for Cell Biology, University of Edinburgh, Edinburgh, Scotland

Histone methylation at H3K4 and H3K36 is commonly associated with genes actively transcribed by RNA polymerase II (RNAPII) and is catalyzed by Set1 and Set2, respectively. Here we report that both methyltransferases can be UV cross-linked to RNA High-throughput sequencing of the bound RNAs revealed strong Set1 enrichment near the transcription start site, whereas Set2 was distributed along pre-mRNAs. A subset of transcripts showed notably high enrichment for Set1 or Set2 binding relative to RNAPII, suggesting functional posttranscriptional interactions. Read More

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Shaping the cellular landscape with Set2/SETD2 methylation.

Cell Mol Life Sci 2017 09 6;74(18):3317-3334. Epub 2017 Apr 6.

Curriculum in Genetics and Molecular Biology, University of North Carolina, Chapel Hill, NC, 27599, USA.

Chromatin structure is a major barrier to gene transcription that must be disrupted and re-set during each round of transcription. Central to this process is the Set2/SETD2 methyltransferase that mediates co-transcriptional methylation to histone H3 at lysine 36 (H3K36me). Studies reveal that H3K36me not only prevents inappropriate transcriptional initiation from arising within gene bodies, but that it has other conserved functions that include the repair of damaged DNA and regulation of pre-mRNA splicing. Read More

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September 2017

The Eaf3/5/7 Subcomplex Stimulates NuA4 Interaction with Methylated Histone H3 Lys-36 and RNA Polymerase II.

J Biol Chem 2016 Sep 17;291(40):21195-21207. Epub 2016 Aug 17.

From the Biomedical Sciences and

NuA4 is the only essential lysine acetyltransferase complex in Saccharomyces cerevisiae, where it has been shown to stimulate transcription initiation and elongation. Interaction with nucleosomes is stimulated by histone H3 Lys-4 and Lys-36 methylation, but the mechanism of this interaction is unknown. Eaf3, Eaf5, and Eaf7 form a subcomplex within NuA4 that may also function independently of the lysine acetyltransferase complex. Read More

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September 2016

Phosphatase Rtr1 Regulates Global Levels of Serine 5 RNA Polymerase II C-Terminal Domain Phosphorylation and Cotranscriptional Histone Methylation.

Mol Cell Biol 2016 09 12;36(17):2236-45. Epub 2016 Aug 12.

Department of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana, USA Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, Indianapolis, Indiana, USA

In eukaryotes, the C-terminal domain (CTD) of Rpb1 contains a heptapeptide repeat sequence of (Y1S2P3T4S5P6S7)n that undergoes reversible phosphorylation through the opposing action of kinases and phosphatases. Rtr1 is a conserved protein that colocalizes with RNA polymerase II (RNAPII) and has been shown to be important for the transition from elongation to termination during transcription by removing RNAPII CTD serine 5 phosphorylation (Ser5-P) at a selection of target genes. In this study, we show that Rtr1 is a global regulator of the CTD code with deletion of RTR1 causing genome-wide changes in Ser5-P CTD phosphorylation and cotranscriptional histone H3 lysine 36 trimethylation (H3K36me3). Read More

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September 2016

Histone H3K36 methylation regulates pre-mRNA splicing in Saccharomyces cerevisiae.

RNA Biol 2016 29;13(4):412-26. Epub 2016 Jan 29.

c Department of Biology , The College of New Jersey , Ewing , NJ , USA.

Co-transcriptional splicing takes place in the context of a highly dynamic chromatin architecture, yet the role of chromatin restructuring in coordinating transcription with RNA splicing has not been fully resolved. To further define the contribution of histone modifications to pre-mRNA splicing in Saccharomyces cerevisiae, we probed a library of histone point mutants using a reporter to monitor pre-mRNA splicing. We found that mutation of H3 lysine 36 (H3K36) - a residue methylated by Set2 during transcription elongation - exhibited phenotypes similar to those of pre-mRNA splicing mutants. Read More

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December 2016

The histone demethylase activity of Rph1 is not essential for its role in the transcriptional response to nutrient signaling.

PLoS One 2014 7;9(7):e95078. Epub 2014 Jul 7.

Department of Microbiology, Swedish University of Agricultural Sciences, Uppsala, Sweden.

Rph1 and Gis1 are two related yeast zinc finger proteins that function as downstream effectors in the Ras/PKA, TOR and Sch9 nutrient signaling pathways. Both proteins also contain JmjC histone demethylase domains, but only Rph1 is known to be an active enzyme, demethylating lysine 36 of histone H3. We have studied to what extent the demethylase activity of Rph1 contributes to its role in nutrient signaling by performing gene expression microarray experiments on a yeast strain containing a catalytically inactive allele of RPH1. Read More

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November 2015

The yeast cap binding complex modulates transcription factor recruitment and establishes proper histone H3K36 trimethylation during active transcription.

Mol Cell Biol 2013 Feb 10;33(4):785-99. Epub 2012 Dec 10.

University of California, San Diego, Division of Biological Sciences, Molecular Biology Section, La Jolla, California, USA.

Recent studies have revealed a close relationship between transcription, histone modification, and RNA processing. In fact, genome-wide analyses that correlate histone marks with RNA processing signals raise the possibility that specific RNA processing factors may modulate transcription and help to "write" chromatin marks. Here we show that the nuclear cap binding complex (CBC) directs recruitment of transcription elongation factors and establishes proper histone marks during active transcription. Read More

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February 2013

RNA polymerase II carboxyl-terminal domain phosphorylation regulates protein stability of the Set2 methyltransferase and histone H3 di- and trimethylation at lysine 36.

J Biol Chem 2012 Jan 7;287(5):3249-56. Epub 2011 Dec 7.

Department of Biochemistry and Biophysics, University of North Carolina, Chapel Hill, North Carolina 27599, USA.

Methylation of lysine 36 on histone H3 (H3K36) is catalyzed by the Set2 methyltransferase and is linked to transcriptional regulation. Previous studies have shown that trimethylation of H3K36 by Set2 is directed through its association with the phosphorylated repeats of the RNA polymerase C-terminal domain (RNAPII CTD). Here, we show that disruption of this interaction through the use of yeast mutants defective in CTD phosphorylation at serine 2 results in a destabilization of Set2 protein levels and H3K36 methylation. Read More

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January 2012

The histone H3K36 methyltransferase MES-4 acts epigenetically to transmit the memory of germline gene expression to progeny.

PLoS Genet 2010 Sep 2;6(9):e1001091. Epub 2010 Sep 2.

Department of Molecular, Cell, and Developmental Biology, University of California Santa Cruz, Santa Cruz, California, United States of America.

Methylation of histone H3K36 in higher eukaryotes is mediated by multiple methyltransferases. Set2-related H3K36 methyltransferases are targeted to genes by association with RNA Polymerase II and are involved in preventing aberrant transcription initiation within the body of genes. The targeting and roles of the NSD family of mammalian H3K36 methyltransferases, known to be involved in human developmental disorders and oncogenesis, are not known. Read More

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September 2010

Histone H3 lysine 36 methyltransferase Hypb/Setd2 is required for embryonic vascular remodeling.

Proc Natl Acad Sci U S A 2010 Feb 28;107(7):2956-61. Epub 2010 Jan 28.

State Key Laboratory of Medical Genomics, Shanghai Institute of Hematology, Rui Jin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai 200025, China.

HYPB is a human histone H3 lysine 36 (H3K36)-specific methyltransferase and acts as the ortholog of yeast Set2. This study explored the physiological function of mammalian HYPB using knockout mice. Homozygous disruption of Hypb impaired H3K36 trimethylation but not mono- or dimethylation, and resulted in embryonic lethality at E10. Read More

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February 2010

Asf1 can promote trimethylation of H3 K36 by Set2.

Mol Cell Biol 2010 Mar 4;30(5):1116-29. Epub 2010 Jan 4.

Department of Biochemistry, University of Alberta, MSB 5-76, Edmonton, Alberta, Canada T6G 2H7.

Asf1 is a conserved histone H3/H4 chaperone that can assemble and disassemble nucleosomes and promote histone acetylation. Set2 is an H3 K36 methyltransferase. The functions of these proteins intersect in the context of transcription elongation by RNA polymerase II: both contribute to the establishment of repressive chromatin structures that inhibit spurious intragenic transcription. Read More

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High-resolution protein structure determination starting with a global fold calculated from exact solutions to the RDC equations.

J Biomol NMR 2009 Nov 27;45(3):265-81. Epub 2009 Aug 27.

Department of Computer Science, Duke University, Durham, NC, 27708, USA.

We present a novel structure determination approach that exploits the global orientational restraints from RDCs to resolve ambiguous NOE assignments. Unlike traditional approaches that bootstrap the initial fold from ambiguous NOE assignments, we start by using RDCs to compute accurate secondary structure element (SSE) backbones at the beginning of structure calculation. Our structure determination package, called RDC-PANDA: (RDC-based SSE PAcking with NOEs for Structure Determination and NOE Assignment), consists of three modules: (1) RDC-EXACT: ; (2) PACKER: ; and (3) HANA: (HAusdorff-based NOE Assignment). Read More

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November 2009

Roles for Ctk1 and Spt6 in regulating the different methylation states of histone H3 lysine 36.

Mol Cell Biol 2008 Aug 9;28(16):4915-26. Epub 2008 Jun 9.

Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, United Kingdom.

Set2 (KMT3)-dependent methylation (me) of histone H3 at lysine 36 (H3K36) promotes deacetylation of transcribed chromatin and represses cryptic promoters within genes. Although Set2 is the only methyltransferase (KMTase) for H3K36 in yeast, it is not known if Set2 is regulated or whether the different methylation states at H3K36 are functionally distinct. Here we show that the N-terminal 261 residues of Set2 (Set2(1-261)), containing the SET KMTase domain, are sufficient for H3K36me2, histone deacetylation, and repression of cryptic promoters at STE11. Read More

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Proline isomerization of histone H3 regulates lysine methylation and gene expression.

Cell 2006 Sep;126(5):905-16

Gurdon Institute and Department of Pathology, Tennis Court Road, Cambridge, CB2 1QR, UK.

The cis-trans isomerization of proline serves as a regulatory switch in signaling pathways. We identify the proline isomerase Fpr4, a member of the FK506 binding protein family in Saccharomyces cerevisiae, as an enzyme which binds the amino-terminal tail of histones H3 and H4 and catalyses the isomerization of H3 proline P30 and P38 in vitro. We show that P38 is necessary for methylation of K36 and that isomerization by Fpr4 inhibits the ability of Set2 to methylate H3 K36 in vitro. Read More

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September 2006

Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription.

Cell 2005 Nov;123(4):581-92

Stowers Institute for Medical Research, Kansas City, Missouri 64110, USA.

Yeast Rpd3 histone deacetylase plays an important role at actively transcribed genes. We characterized two distinct Rpd3 complexes, Rpd3L and Rpd3S, by MudPIT analysis. Both complexes shared a three subunit core and Rpd3L contains unique subunits consistent with being a promoter targeted corepressor. Read More

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November 2005

Histone H3 K36 methylation is associated with transcription elongation in Schizosaccharomyces pombe.

Eukaryot Cell 2005 Aug;4(8):1446-54

Department of Biochemistry and Biophysics, University of North Carolina School of Medicine, Chapel Hill, North Carolina 27599, USA.

Set2 methylation of histone H3 at lysine 36 (K36) has recently been shown to be associated with RNA polymerase II (Pol II) elongation in Saccharomyces cerevisiae. However, whether this modification is conserved and associated with transcription elongation in other organisms is not known. Here we report the identification and characterization of the Set2 ortholog responsible for K36 methylation in the fission yeast Schizosaccharomyces pombe. Read More

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Expanding the functional repertoire of CTD kinase I and RNA polymerase II: novel phosphoCTD-associating proteins in the yeast proteome.

Biochemistry 2004 Dec;43(50):15702-19

Department of Biochemistry, Duke University Medical Center, Durham, North Carolina 27710, USA.

CTD kinase I (CTDK-I) of Saccharomyces cerevisiae is required for normal phosphorylation of the C-terminal repeat domain (CTD) on elongating RNA polymerase II. To elucidate cellular roles played by this kinase and the hyperphosphorylated CTD (phosphoCTD) it generates, we systematically searched yeast extracts for proteins that bound to the phosphoCTD made by CTDK-I in vitro. Initially, using a combination of far-western blotting and phosphoCTD affinity chromatography, we discovered a set of novel phosphoCTD-associating proteins (PCAPs) implicated in a variety of nuclear functions. Read More

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December 2004

Synthesis, characterization, and electrochemical relationships of dinuclear complexes of platinum(II) and platinum(III) containing ortho-metalated tertiary arsine ligands.

Inorg Chem 2004 Nov;43(24):7752-63

School of Applied Sciences (Applied Chemistry), RMIT University, GPO Box 2476V, Melbourne, Victoria 3001, Australia, Research School of Chemistry, Australian National University, Canberra, A.C.T. 0200, Australia.

Reaction of 2-Li-4-MeC6H3AsPh2 with [PtCl2(SEt2)2] gives two isomeric dinuclear platinum(II) complexes, one containing a half-lantern structure with two chelating and two bridging C6H3-5-Me-2-AsPh2 ligands, [Pt2(kappa2As,C-C6H3-5-Me-2-AsPh2)2(mu-kappaAs,kappaC-C6H3-5-Me-2-AsPh2)2], and the other, a full-lantern with four bridging C6H3-5-Me-2-AsPh2 ligands, [Pt2(mu-kappaAs,kappaC-C6H3-5-Me-2-AsPh2)4]. The lantern structure of the latter is retained in the dihalodiplatinum(III) complexes that are formed by oxidative addition of chlorine, bromine, or iodine to the isomeric mixture. The dichloro derivative undergoes metathesis reactions with silver or sodium salts, yielding the corresponding cyano, thiocyanato, cyanato, and fluoro species. Read More

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November 2004

Redox chemistry of morpholine-based Os(VI)-hydrazido complexes: trans-[Os(VI)(tpy)(Cl)2(NN(CH2)4O)](2+).

Inorg Chem 2001 Sep;40(20):5231-5

The Department of Chemistry, Venable and Kenan Laboratories, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599-3290, USA.

The oxidations of benzyl alcohol, PPh3, and the sulfides (SEt2 and SPh2) (Ph = phenyl and Et = ethyl) by the Os(VI)-hydrazido complex trans-[Os(VI)(tpy)(Cl)2(NN(CH2)4O)](2+) (tpy = 2,2':6',2' '-terpyridine and O(CH2)4N(-) = morpholide) have been investigated in CH3CN solution by UV-visible monitoring and product analysis by gas chromatography-mass spectrometry. For benzyl alcohol and the sulfides, the rate law for the formation of the Os(V)-hydrazido complex, trans-[Os(V)(tpy)(Cl)2(NN(CH2)4O)](+), is first order in both trans-[Os(VI)(tpy)(Cl)2(NN(CH2)4O)](2+) and reductant, with k(benzyl) (25.0 +/- 0. Read More

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September 2001

[The role of T2*-weighted gradient-echo magnetic resonance sequences in the study of suspected dorsal-lumbosacral vertebral metastases].

Radiol Med 1997 Oct;94(4):296-301

Istituto di Radiologia, Università di Genova.

Introduction: Magnetic resonance (MR) imaging showed high reliability in detecting spine metastases with spin-echo (SE) sequences, T1-weighted sequences being generally more sensitive than T/-weighted ones. We investigated the value of T2*-weighted gradient-echo (GE) sequences in studying spine metastases.

Materials And Methods: Twenty patients with established diagnosis of primary carcinoma and clinically suspected thoracic and/or lumbosacral spine metastases underwent . Read More

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October 1997
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