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Analytical Techniques for the Elucidation of Protein Function

Isao Suetake, Rohit K. Sharma, Hironobu Hojo

1, 2023

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5-Hydroxymethylcytosine Marks Sites of DNA Damage and Promotes Genome Stability

Cell reports (Cambridge), 2016-02, Vol.14 (6), p.1283-1292

2016

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Synaptic control of DNA methylation involves activity-dependent degradation of DNMT3A1 in the nucleus

Neuropsychopharmacology (New York, N.Y.), 2020-11, Vol.45 (12), p.2120-2130

2020

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

Proceedings of the National Academy of Sciences - PNAS, 2011-05, Vol.108 (22), p.9055-9059

2011

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Interactions of HP1 Bound to H3K9me3 Dinucleosome by Molecular Simulations and Biochemical Assays

Biophysical journal, 2018-05, Vol.114 (10), p.2336-2351

2018

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Chemical synthesis of palmitoylated histone H4

ARKIVOC free online journal of organic chemistry, 2020-11, Vol.2021 (4), p.186-197

2020

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Total Synthesis and Structural Characterization of Caveolin‐1

Angewandte Chemie International Edition, 2021-06, Vol.60 (25), p.13900-13905

International ed. in English, 2021

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Domain Structure of the Dnmt1, Dnmt3a, and Dnmt3b DNA Methyltransferases

Advances in experimental medicine and biology, 2022-01, Vol.1389, p.45-68

2022

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DNMT3L Stimulates the DNA Methylation Activity of Dnmt3a and Dnmt3b through a Direct Interaction

The Journal of biological chemistry, 2004-06, Vol.279 (26), p.27816-27823

2004

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DNMT1 regulates the timing of DNA methylation by DNMT3 in an enzymatic activity-dependent manner in mouse embryonic stem cells

PloS one, 2022-01, Vol.17 (1), p.e0262277-e0262277

2022

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Delayed male germ cell sex-specification permits transition into embryonal carcinoma cells with features of primed pluripotency

Development (Cambridge), 2018-03, Vol.145 (6), p.dev156612-dev156612

2018

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Conserved threonine 1505 in the catalytic domain stabilizes mouse DNA methyltransferase 1

Journal of biochemistry (Tokyo), 2017-10, Vol.162 (4), p.271-278

2017

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Samd7 is a cell type-specific PRC1 component essential for establishing retinal rod photoreceptor identity

Proceedings of the National Academy of Sciences - PNAS, 2017-09, Vol.114 (39), p.E8264-E8273

2017

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Simple and accurate single base resolution analysis of 5-hydroxymethylcytosine by catalytic oxidative bisulfite sequencing using micelle incarcerated oxidants

Bioorganic & medicinal chemistry, 2016-09, Vol.24 (18), p.4254-4262

2016

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A Novel method for the simultaneous identification of methylcytosine and hydroxymethylcytosine at a single base resolution

Nucleic acids research, 2017-02, Vol.45 (4), p.e24

2017

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Synthesis of histone proteins by CPE ligation using a recombinant peptide as the C-terminal building block

Journal of biochemistry (Tokyo), 2015-11, Vol.158 (5), p.403-411

2015

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Synthesis of ubiquitylated histone H3 using a thiirane linker for chemical ligation

Journal of peptide science, 2017-07, Vol.23 (7-8), p.532-538

2017

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Cell cycle-dependent turnover of 5-hydroxymethyl cytosine in mouse embryonic stem cells

PloS one, 2013-12, Vol.8 (12), p.e82961-e82961

2013

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Structural dynamics of the chromo-shadow domain and chromodomain of HP1 bound to histone H3K9 methylated peptide, as measured by site-directed spin-labeling EPR spectroscopy

Biochemical and biophysical research communications, 2021-08, Vol.567, p.42-48

2021

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Structural Basis of the Versatile DNA Recognition Ability of the Methyl-CpG Binding Domain of Methyl-CpG Binding Domain Protein 4

The Journal of biological chemistry, 2013-03, Vol.288 (9), p.6351-6362

2013

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Chemical synthesis of the ubiquitinated form of histone H3 and its effect on DNA methyltransferase 1

Journal of peptide science, 2019-09, Vol.25 (9), p.e3200-n/a

2019

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Dual Functions of the RFTS Domain of Dnmt1 in Replication-Coupled DNA Methylation and in Protection of the Genome from Aberrant Methylation

PloS one, 2015-09, Vol.10 (9), p.e0137509-e0137509

2015

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Protective effects of nicotinamide mononucleotide against oxidative stress-induced PC12 cell death via mitochondrial enhancement

PharmaNutrition, 2020-03, Vol.11, p.100175, Article 100175

2020

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Enhanced processivity of Dnmt1 by monoubiquitinated histone H3

Genes to cells : devoted to molecular & cellular mechanisms, 2020-01, Vol.25 (1), p.22-32

2020

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Processive Methylation of Hemimethylated CpG Sites by Mouse Dnmt1 DNA Methyltransferase

The Journal of biological chemistry, 2005-01, Vol.280 (1), p.64-72

2005

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Analytical Techniques for the Elucidation of Protein Function

5-Hydroxymethylcytosine Marks Sites of DNA Damage and Promotes Genome Stability

Synaptic control of DNA methylation involves activity-dependent degradation of DNMT3A1 in the nucleus

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

Interactions of HP1 Bound to H3K9me3 Dinucleosome by Molecular Simulations and Biochemical Assays

Chemical synthesis of palmitoylated histone H4

Total Synthesis and Structural Characterization of Caveolin‐1

Domain Structure of the Dnmt1, Dnmt3a, and Dnmt3b DNA Methyltransferases

DNMT3L Stimulates the DNA Methylation Activity of Dnmt3a and Dnmt3b through a Direct Interaction

DNMT1 regulates the timing of DNA methylation by DNMT3 in an enzymatic activity-dependent manner in mouse embryonic stem cells

Delayed male germ cell sex-specification permits transition into embryonal carcinoma cells with features of primed pluripotency

Conserved threonine 1505 in the catalytic domain stabilizes mouse DNA methyltransferase 1

Samd7 is a cell type-specific PRC1 component essential for establishing retinal rod photoreceptor identity

Simple and accurate single base resolution analysis of 5-hydroxymethylcytosine by catalytic oxidative bisulfite sequencing using micelle incarcerated oxidants

A Novel method for the simultaneous identification of methylcytosine and hydroxymethylcytosine at a single base resolution

Synthesis of histone proteins by CPE ligation using a recombinant peptide as the C-terminal building block

Synthesis of ubiquitylated histone H3 using a thiirane linker for chemical ligation

Cell cycle-dependent turnover of 5-hydroxymethyl cytosine in mouse embryonic stem cells

Structural dynamics of the chromo-shadow domain and chromodomain of HP1 bound to histone H3K9 methylated peptide, as measured by site-directed spin-labeling EPR spectroscopy

Structural Basis of the Versatile DNA Recognition Ability of the Methyl-CpG Binding Domain of Methyl-CpG Binding Domain Protein 4

Chemical synthesis of the ubiquitinated form of histone H3 and its effect on DNA methyltransferase 1

Dual Functions of the RFTS Domain of Dnmt1 in Replication-Coupled DNA Methylation and in Protection of the Genome from Aberrant Methylation

Protective effects of nicotinamide mononucleotide against oxidative stress-induced PC12 cell death via mitochondrial enhancement

Enhanced processivity of Dnmt1 by monoubiquitinated histone H3

Processive Methylation of Hemimethylated CpG Sites by Mouse Dnmt1 DNA Methyltransferase

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