Literature DB >> 26931326

A Structural Perspective on Readout of Epigenetic Histone and DNA Methylation Marks.

Dinshaw J Patel1.   

Abstract

This article outlines the protein modules that target methylated lysine histone marks and 5mC DNA marks, and the molecular principles underlying recognition. The article focuses on the structural basis underlying readout of isolated marks by single reader molecules, as well as multivalent readout of multiple marks by linked reader cassettes at the histone tail and nucleosome level. Additional topics addressed include the role of histone mimics, cross talk between histone marks, technological developments at the genome-wide level, advances using chemical biology approaches, the linkage between histone and DNA methylation, the role for regulatory lncRNAs, and the promise of chromatin-based therapeutic modalities.
Copyright © 2016 Cold Spring Harbor Laboratory Press; all rights reserved.

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Year:  2016        PMID: 26931326      PMCID: PMC4772102          DOI: 10.1101/cshperspect.a018754

Source DB:  PubMed          Journal:  Cold Spring Harb Perspect Biol        ISSN: 1943-0264            Impact factor:   10.005


  286 in total

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Journal:  J Biol Chem       Date:  2010-09-24       Impact factor: 5.157

2.  Molecular basis of the interaction of Saccharomyces cerevisiae Eaf3 chromo domain with methylated H3K36.

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3.  WDR5 interacts with mixed lineage leukemia (MLL) protein via the histone H3-binding pocket.

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Journal:  J Biol Chem       Date:  2008-10-07       Impact factor: 5.157

4.  Crystal structure of the nucleosome core particle at 2.8 A resolution.

Authors:  K Luger; A W Mäder; R K Richmond; D F Sargent; T J Richmond
Journal:  Nature       Date:  1997-09-18       Impact factor: 49.962

5.  An atomic model of Zfp57 recognition of CpG methylation within a specific DNA sequence.

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6.  Polycomb PHF19 binds H3K36me3 and recruits PRC2 and demethylase NO66 to embryonic stem cell genes during differentiation.

Authors:  Gerard L Brien; Guillermo Gambero; David J O'Connell; Emilia Jerman; Siobhán A Turner; Chris M Egan; Eiseart J Dunne; Maike C Jurgens; Kieran Wynne; Lianhua Piao; Amanda J Lohan; Neil Ferguson; Xiaobing Shi; Krishna M Sinha; Brendan J Loftus; Gerard Cagney; Adrian P Bracken
Journal:  Nat Struct Mol Biol       Date:  2012-11-18       Impact factor: 15.369

7.  UHRF1, a modular multi-domain protein, regulates replication-coupled crosstalk between DNA methylation and histone modifications.

Authors:  Hideharu Hashimoto; John R Horton; Xing Zhang; Xiaodong Cheng
Journal:  Epigenetics       Date:  2009-01-10       Impact factor: 4.528

8.  Histone recognition by human malignant brain tumor domains.

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Journal:  J Mol Biol       Date:  2012-09-04       Impact factor: 5.469

9.  The C-terminal domain of RNA polymerase II is modified by site-specific methylation.

Authors:  Robert J Sims; Luis Alejandro Rojas; David B Beck; Roberto Bonasio; Roland Schüller; William J Drury; Dirk Eick; Danny Reinberg
Journal:  Science       Date:  2011-04-01       Impact factor: 47.728

10.  The site-specific installation of methyl-lysine analogs into recombinant histones.

Authors:  Matthew D Simon; Feixia Chu; Lisa R Racki; Cecile C de la Cruz; Alma L Burlingame; Barbara Panning; Geeta J Narlikar; Kevan M Shokat
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  33 in total

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Authors:  Lian-Mei Tan; Rui Liu; Bo-Wen Gu; Cui-Jun Zhang; Jinyan Luo; Jing Guo; Yuhua Wang; Lixian Chen; Xuan Du; Sisi Li; Chang-Rong Shao; Yin-Na Su; Xue-Wei Cai; Rong-Nan Lin; Lin Li; She Chen; Jiamu Du; Xin-Jian He
Journal:  Plant Cell       Date:  2020-04-30       Impact factor: 11.277

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Review 3.  Transcriptional regulation by trithorax-group proteins.

Authors:  Robert E Kingston; John W Tamkun
Journal:  Cold Spring Harb Perspect Biol       Date:  2014-10-01       Impact factor: 10.005

Review 4.  Proteins and Proteoforms: New Separation Challenges.

Authors:  Fred E Regnier; JinHee Kim
Journal:  Anal Chem       Date:  2017-12-18       Impact factor: 6.986

Review 5.  Chromatin regulation in plant hormone and plant stress responses.

Authors:  Likai Wang; Hong Qiao
Journal:  Curr Opin Plant Biol       Date:  2020-11-02       Impact factor: 7.834

6.  Uncovering the mechanistic basis for specific recognition of monomethylated H3K4 by the CW domain of Arabidopsis histone methyltransferase SDG8.

Authors:  Yanchao Liu; Ying Huang
Journal:  J Biol Chem       Date:  2018-03-01       Impact factor: 5.157

Review 7.  Histone Tail Conformations: A Fuzzy Affair with DNA.

Authors:  Mohamed Ghoneim; Harrison A Fuchs; Catherine A Musselman
Journal:  Trends Biochem Sci       Date:  2021-02-04       Impact factor: 13.807

Review 8.  Recent advancements in understanding the role of epigenetics in the auditory system.

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Review 9.  Epigenetic Determinants of Cancer.

Authors:  Stephen B Baylin; Peter A Jones
Journal:  Cold Spring Harb Perspect Biol       Date:  2016-09-01       Impact factor: 10.005

10.  Engineering a methyllysine reader with photoactive amino acid in mammalian cells.

Authors:  Simran Arora; Sushma Sappa; Kathryn Hinkelman; Kabirul Islam
Journal:  Chem Commun (Camb)       Date:  2020-09-14       Impact factor: 6.222

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