Allosteric control of mammalian DNA methyltransferases – a new regulatory paradigm

Conserved motif VIII of murine DNA methyltransferase Dnmt3a is essential for methylation activity

(2016) Olga V. Lukashevich et al.   BMC BIOCHEMISTRY

Structural basis for recognition of histone H3K36me3 nucleosome by human de novo DNA methyltransferases 3A and 3B

(2016) Grégoire Rondelet et al.   JOURNAL OF STRUCTURAL BIOLOGY

Impairment of DNA Methylation Maintenance Is the Main Cause of Global Demethylation in Naive Embryonic Stem Cells

(2016) Ferdinand von Meyenn et al.   MOLECULAR CELL

Structural basis for activity regulation of MLL family methyltransferases

(2016) Yanjing Li et al.   NATURE

DNA methylation on N6-adenine in mammalian embryonic stem cells

(2016) Tao P. Wu et al.   NATURE

A two-state activation mechanism controls the histone methyltransferase Suv39h1

(2016) Manuel M Müller et al.   Nature Chemical Biology

The SNF2 family ATPase LSH promotes cell-autonomousde novoDNA methylation in somatic cells

(2016) Ausma Termanis et al.   NUCLEIC ACIDS RESEARCH

Human DNMT1 transition state structure

(2016) Quan Du et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DNMT3B isoforms without catalytic activity stimulate gene body methylation as accessory proteins in somatic cells

(2016) Christopher E. Duymich et al.   Nature Communications

Hemi-methylated DNA opens a closed conformation of UHRF1 to facilitate its histone recognition

(2016) Jian Fang et al.   Nature Communications

PIWI-Interacting RNA: Its Biogenesis and Functions

(2015) Yuka W. Iwasaki et al.   Annual Review of Biochemistry

DNA Methylation on N6-Adenine in C. elegans

(2015) Eric Lieberman Greer et al.   CELL

N6-Methyladenine DNA Modification in Drosophila

(2015) Guoqiang Zhang et al.   CELL

DNA methylation requires a DNMT1 ubiquitin interacting motif (UIM) and histone ubiquitination

(2015) Weihua Qin et al.   CELL RESEARCH

Crystal Structure of Human DNA Methyltransferase 1

(2015) Zhi-Min Zhang et al.   JOURNAL OF MOLECULAR BIOLOGY

Engineering of a Histone-Recognition Domain in Dnmt3a Alters the Epigenetic Landscape and Phenotypic Features of Mouse ESCs

(2015) Kyung-Min Noh et al.   MOLECULAR CELL

Disruption of DNA-methylation-dependent long gene repression in Rett syndrome

(2015) Harrison W. Gabel et al.   NATURE

Human body epigenome maps reveal noncanonical DNA methylation variation

(2015) Matthew D. Schultz et al.   NATURE

Genomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation

(2015) Tuncay Baubec et al.   NATURE

RNA-mediated epigenetic regulation of gene expression

(2015) Daniel Holoch et al.   NATURE REVIEWS GENETICS

DNA N6-methyladenine: a new epigenetic mark in eukaryotes?

(2015) Guan-Zheng Luo et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Binding of 14-3-3 reader proteins to phosphorylated DNMT1 facilitates aberrant DNA methylation and gene expression

(2015) Pierre-Olivier Estève et al.   NUCLEIC ACIDS RESEARCH

Small RNA-mediated DNA (cytosine-5) methyltransferase 1 inhibition leads to aberrant DNA methylation

(2015) Guoqiang Zhang et al.   NUCLEIC ACIDS RESEARCH

MeCP2 binds to non-CG methylated DNA as neurons mature, influencing transcription and the timing of onset for Rett syndrome

(2015) Lin Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural basis of histone H3K27 trimethylation by an active polycomb repressive complex 2

(2015) L. Jiao et al.   SCIENCE

Genetic alterations of DNA methylation machinery in human diseases

(2015) Tewfik Hamidi et al.   Epigenomics

Molecular mechanism for USP7-mediated DNMT1 stabilization by acetylation

(2015) Jingdong Cheng et al.   Nature Communications

In vivo targeting of de novo DNA methylation by histone modifications in yeast and mouse

(2015) Marco Morselli et al.   eLife

Targeted Mutagenesis Results in an Activation of DNA Methyltransferase 1 and Confirms an Autoinhibitory Role of its RFTS Domain

(2014) Pavel Bashtrykov et al.   CHEMBIOCHEM

Cooperative DNA Binding and Protein/DNA Fiber Formation Increases the Activity of the Dnmt3a DNA Methyltransferase

(2014) Max Emperle et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural insight into autoinhibition and histone H3-induced activation of DNMT3A

(2014) Xue Guo et al.   NATURE

RNA-directed DNA methylation: an epigenetic pathway of increasing complexity

(2014) Marjori A. Matzke et al.   NATURE REVIEWS GENETICS

Structure and function of the nucleosome-binding PWWP domain

(2014) Su Qin et al.   TRENDS IN BIOCHEMICAL SCIENCES

New concepts in DNA methylation

(2014) Albert Jeltsch et al.   TRENDS IN BIOCHEMICAL SCIENCES

Regulation of DNA Methylation Patterns by CK2-Mediated Phosphorylation of Dnmt3a

(2014) Rachel Deplus et al.   Cell Reports

Dnmt3L Antagonizes DNA Methylation at Bivalent Promoters and Favors DNA Methylation at Gene Bodies in ESCs

(2013) Francesco Neri et al.   CELL

Multivalent histone engagement by the linked tandem Tudor and PHD domains of UHRF1 is required for the epigenetic inheritance of DNA methylation

(2013) S. B. Rothbart et al.   GENES & DEVELOPMENT

Dynamic DNA methylation across diverse human cell lines and tissues

(2013) K. E. Varley et al.   GENOME RESEARCH

The UHRF1 Protein Stimulates the Activity and Specificity of the Maintenance DNA Methyltransferase DNMT1 by an Allosteric Mechanism

(2013) Pavel Bashtrykov et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The DNA Methyltransferase Dnmt1 Directly Interacts with the SET and RING Finger-associated (SRA) Domain of the Multifunctional Protein Uhrf1 to Facilitate Accession of the Catalytic Center to Hemi-methylated DNA

(2013) Ahmet Can Berkyurek et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Uhrf1-dependent H3K23 ubiquitylation couples maintenance DNA methylation and replication

(2013) Atsuya Nishiyama et al.   NATURE

DNMT1-interacting RNAs block gene-specific DNA methylation

(2013) Annalisa Di Ruscio et al.   NATURE

Distribution, recognition and regulation of non-CpG methylation in the adult mammalian brain

(2013) Junjie U Guo et al.   NATURE NEUROSCIENCE

DNA methylation dynamics in health and disease

(2013) Yehudit Bergman et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The NuRD complex cooperates with DNMTs to maintain silencing of key colorectal tumor suppressor genes

(2013) Y Cai et al.   ONCOGENE

Global Epigenomic Reconfiguration During Mammalian Brain Development

(2013) R. Lister et al.   SCIENCE

Epigenetic Reprogramming in Cancer

(2013) M. L. Suva et al.   SCIENCE

Nucleosomal DNA binding drives the recognition of H3K36-methylated nucleosomes by the PSIP1-PWWP domain

(2013) Rick van Nuland et al.   Epigenetics & Chromatin

UHRF1 targets DNMT1 for DNA methylation through cooperative binding of hemi-methylated DNA and methylated H3K9

(2013) Xiaoli Liu et al.   Nature Communications

Genome Regulation by Long Noncoding RNAs

(2012) John L. Rinn et al.   Annual Review of Biochemistry

Dual Binding of Chromomethylase Domains to H3K9me2-Containing Nucleosomes Directs DNA Methylation in Plants

(2012) Jiamu Du et al.   CELL

Specificity of Dnmt1 for Methylation of Hemimethylated CpG Sites Resides in Its Catalytic Domain

(2012) Pavel Bashtrykov et al.   CHEMISTRY & BIOLOGY

Mechanistic details of the DNA recognition by the Dnmt1 DNA methyltransferase

(2012) Pavel Bashtrykov et al.   FEBS LETTERS

Functions of DNA methylation: islands, start sites, gene bodies and beyond

(2012) Peter A. Jones   NATURE REVIEWS GENETICS

Association of UHRF1 with methylated H3K9 directs the maintenance of DNA methylation

(2012) Scott B Rothbart et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

RNA modulation of the human DNA methyltransferase 3A

(2012) Celeste Holz-Schietinger et al.   NUCLEIC ACIDS RESEARCH

Structure-Based Mechanistic Insights into DNMT1-Mediated Maintenance DNA Methylation

(2012) J. Song et al.   SCIENCE

In Vivo Control of CpG and Non-CpG DNA Methylation by DNA Methyltransferases

(2012) Julia Arand et al.   PLoS Genetics

Characterization of DNA-binding activity in the N-terminal domain of the DNA methyltransferase Dnmt3a

(2011) Isao Suetake et al.   BIOCHEMICAL JOURNAL

PKC isoforms interact with and phosphorylate DNMT1

(2011) Geneviève Lavoie et al.   BMC BIOLOGY

The Multifaceted Roles of USP7: New Therapeutic Opportunities

(2011) Benjamin Nicholson et al.   CELL BIOCHEMISTRY AND BIOPHYSICS

Structural basis for site-specific reading of unmodified R2 of histone H3 tail by UHRF1 PHD finger

(2011) Chengkun Wang et al.   CELL RESEARCH

Crystal structure of PHD domain of UHRF1 and insights into recognition of unmodified histone H3 arginine residue 2

(2011) Lulu Hu et al.   CELL RESEARCH

Histone tails regulate DNA methylation by allosterically activating de novo methyltransferase

(2011) Bin-Zhong Li et al.   CELL RESEARCH

Approaches to Enzyme and Substrate Design of the Murine Dnmt3a DNA Methyltransferase

(2011) Renata Z. Jurkowska et al.   CHEMBIOCHEM

The ATRX-ADD domain binds to H3 tail peptides and reads the combined methylation state of K4 and K9

(2011) Arunkumar Dhayalan et al.   HUMAN MOLECULAR GENETICS

Recognition of Multivalent Histone States Associated with Heterochromatin by UHRF1 Protein

(2011) Nataliya Nady et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The Replication Focus Targeting Sequence (RFTS) Domain Is a DNA-competitive Inhibitor of Dnmt1

(2011) Farisa Syeda et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Oligomerization and Binding of the Dnmt3a DNA Methyltransferase to Parallel DNA Molecules

(2011) Renata Z. Jurkowska et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Distinct Roles of DMAP1 in Mouse Development

(2011) K. N. Mohan et al.   MOLECULAR AND CELLULAR BIOLOGY

SIRT1 Deacetylates the DNA Methyltransferase 1 (DNMT1) Protein and Alters Its Activities

(2011) L. Peng et al.   MOLECULAR AND CELLULAR BIOLOGY

PHD Finger Recognition of Unmodified Histone H3R2 Links UHRF1 to Regulation of Euchromatic Gene Expression

(2011) Eerappa Rajakumara et al.   MOLECULAR CELL

Mapping and analysis of chromatin state dynamics in nine human cell types

(2011) Jason Ernst et al.   NATURE

Dynamic CpG island methylation landscape in oocytes and preimplantation embryos

(2011) Sébastien A Smallwood et al.   NATURE GENETICS

Nucleosomes protect DNA from DNA methylation in vivo and in vitro

(2011) Max Felle et al.   NUCLEIC ACIDS RESEARCH

Function and disruption of DNA Methyltransferase 3a cooperative DNA binding and nucleoprotein filament formation

(2011) Arumugam Rajavelu et al.   NUCLEIC ACIDS RESEARCH

The USP7/Dnmt1 complex stimulates the DNA methylation activity of Dnmt1 and regulates the stability of UHRF1

(2011) Max Felle et al.   NUCLEIC ACIDS RESEARCH

Structural insight into maintenance methylation by mouse DNA methyltransferase 1 (Dnmt1)

(2011) K. Takeshita et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genomic Distribution and Inter-Sample Variation of Non-CpG Methylation across Human Cell Types

(2011) Michael J. Ziller et al.   PLoS Genetics

Nucleosomes Containing Methylated DNA Stabilize DNA Methyltransferases 3A/3B and Ensure Faithful Epigenetic Inheritance

(2011) Shikhar Sharma et al.   PLoS Genetics

Identification of a second DNA binding site in human DNA methyltransferase 3A by substrate inhibition and domain deletion

(2010) Matthew M. Purdy et al.   ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS

The DNA-binding activity of mouse DNA methyltransferase 1 is regulated by phosphorylation with casein kinase 1δ/ε

(2010) Yasunori Sugiyama et al.   BIOCHEMICAL JOURNAL

Structure and Function of Mammalian DNA Methyltransferases

(2010) Renata Zofia Jurkowska et al.   CHEMBIOCHEM

Interaction of noncoding RNA with the rDNA promoter mediates recruitment of DNMT3b and silencing of rRNA genes

(2010) K.-M. Schmitz et al.   GENES & DEVELOPMENT

The Inherent Processivity of the Humande NovoMethyltransferase 3A (DNMT3A) Is Enhanced by DNMT3L

(2010) Celeste Holz-Schietinger et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The Dnmt3a PWWP Domain Reads Histone 3 Lysine 36 Trimethylation and Guides DNA Methylation

(2010) Arunkumar Dhayalan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Usp7 and Uhrf1 control ubiquitination and stability of the maintenance DNA methyltransferase Dnmt1

(2010) Weihua Qin et al.   JOURNAL OF CELLULAR BIOCHEMISTRY

Relationship between nucleosome positioning and DNA methylation

(2010) Ramakrishna K. Chodavarapu et al.   NATURE

A methylation and phosphorylation switch between an adjacent lysine and serine determines human DNMT1 stability

(2010) Pierre-Olivier Estève et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Chromatin methylation activity of Dnmt3a and Dnmt3a/3L is guided by interaction of the ADD domain with the histone H3 tail

(2010) Yingying Zhang et al.   NUCLEIC ACIDS RESEARCH

Disruption of Dnmt1/PCNA/UHRF1 Interactions Promotes Tumorigenesis from Human and Mice Glial Cells

(2010) Eric Hervouet et al.   PLoS One

Structure of DNMT1-DNA Complex Reveals a Role for Autoinhibition in Maintenance DNA Methylation

(2010) J. Song et al.   SCIENCE

DNMT1 Stability Is Regulated by Proteins Coordinating Deubiquitination and Acetylation-Driven Ubiquitination

(2010) Z. Du et al.   Science Signaling

Molecular coupling of DNA methylation and histone methylation

(2010) Hideharu Hashimoto et al.   Epigenomics

Structural basis for recognition of H3K4 methylation status by the DNA methyltransferase 3A ATRX–DNMT3–DNMT3L domain

(2009) Junji Otani et al.   EMBO REPORTS

High definition profiling of mammalian DNA methylation by array capture and single molecule bisulfite sequencing

(2009) E. Hodges et al.   GENOME RESEARCH

Selective Anchoring of DNA Methyltransferases 3A and 3B to Nucleosomes Containing Methylated DNA

(2009) S. Jeong et al.   MOLECULAR AND CELLULAR BIOLOGY

Human DNA methylomes at base resolution show widespread epigenomic differences

(2009) Ryan Lister et al.   NATURE

Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells

(2009) Madeleine P Ball et al.   NATURE BIOTECHNOLOGY

Differential chromatin marking of introns and expressed exons by H3K36me3

(2009) Paulina Kolasinska-Zwierz et al.   NATURE GENETICS

Rethinking how DNA methylation patterns are maintained

(2009) Peter A. Jones et al.   NATURE REVIEWS GENETICS

Regulation of DNMT1 stability through SET7-mediated lysine methylation in mammalian cells

(2009) P.-O. Esteve et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Lysine Acetylation Targets Protein Complexes and Co-Regulates Major Cellular Functions

(2009) C. Choudhary et al.   SCIENCE

DNA Methylation Analysis of Chromosome 21 Gene Promoters at Single Base Pair and Single Allele Resolution

(2009) Yingying Zhang et al.   PLoS Genetics

CXXC Domain of Human DNMT1 Is Essential for Enzymatic Activity

(2008) Mihika Pradhan et al.   BIOCHEMISTRY

Mouse Dnmt3a Preferentially Methylates Linker DNA and Is Inhibited by Histone H1

(2008) Hideyuki Takeshima et al.   JOURNAL OF MOLECULAR BIOLOGY

Inhibition of Histone Deacetylases Promotes Ubiquitin-Dependent Proteasomal Degradation of DNA Methyltransferase 1 in Human Breast Cancer Cells

(2008) Q. Zhou et al.   MOLECULAR CANCER RESEARCH

The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix

(2008) Hideharu Hashimoto et al.   NATURE

Recognition of hemi-methylated DNA by the SRA protein UHRF1 by a base-flipping mechanism

(2008) Kyohei Arita et al.   NATURE

Structural basis for recognition of hemi-methylated DNA by the SRA domain of human UHRF1

(2008) George V. Avvakumov et al.   NATURE

Genome-scale DNA methylation maps of pluripotent and differentiated cells

(2008) Alexander Meissner et al.   NATURE

Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning

(2008) Shawn J. Cokus et al.   NATURE

The lysine demethylase LSD1 (KDM1) is required for maintenance of global DNA methylation

(2008) Jing Wang et al.   NATURE GENETICS

DNA methylation landscapes: provocative insights from epigenomics

(2008) Miho M. Suzuki et al.   NATURE REVIEWS GENETICS

Reading and writing DNA methylation

(2008) Albert Jeltsch   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Formation of nucleoprotein filaments by mammalian DNA methyltransferase Dnmt3a in complex with regulator Dnmt3L

(2008) Renata Z. Jurkowska et al.   NUCLEIC ACIDS RESEARCH

Mammalian DNA Methyltransferases: A Structural Perspective

(2008) Xiaodong Cheng et al.   STRUCTURE