Structure of 5-hydroxymethylcytosine-specific restriction enzyme, AbaSI, in complex with DNA

Crystal structure of the 5hmC specific endonuclease PvuRts1I

(2014) Asgar Abbas Kazrani et al.   NUCLEIC ACIDS RESEARCH

Structure and mutagenesis of the DNA modification-dependent restriction endonuclease AspBHI

(2014) John R. Horton et al.   Scientific Reports

High-throughput sequencing of methylated cytosine enriched by modification-dependent restriction endonuclease MspJI

(2013) Xiaojun Huang et al.   BMC GENETICS

Crystal Structure of TET2-DNA Complex: Insight into TET-Mediated 5mC Oxidation

(2013) Lulu Hu et al.   CELL

Structure of a Naegleria Tet-like dioxygenase in complex with 5-methylcytosine DNA

(2013) Hideharu Hashimoto et al.   NATURE

Characterization of the 5-hydroxymethylcytosine-specific DNA restriction endonucleases

(2013) J. G. Borgaro et al.   NUCLEIC ACIDS RESEARCH

Computational identification of novel biochemical systems involved in oxidation, glycosylation and other complex modifications of bases in DNA

(2013) Lakshminarayan M. Iyer et al.   NUCLEIC ACIDS RESEARCH

Allosteric Regulation of DNA Cleavage and Sequence-Specificity through Run-On Oligomerization

(2013) Dmitry Lyumkis et al.   STRUCTURE

High-Resolution Enzymatic Mapping of Genomic 5-Hydroxymethylcytosine in Mouse Embryonic Stem Cells

(2013) Zhiyi Sun et al.   Cell Reports

Base-Resolution Analysis of 5-Hydroxymethylcytosine in the Mammalian Genome

(2012) Miao Yu et al.   CELL

Thymine DNA glycosylase specifically recognizes 5-carboxylcytosine-modified DNA

(2012) Liang Zhang et al.   Nature Chemical Biology

Excision of 5-hydroxymethyluracil and 5-carboxylcytosine by the thymine DNA glycosylase domain: its structural basis and implications for active DNA demethylation

(2012) Hideharu Hashimoto et al.   NUCLEIC ACIDS RESEARCH

Organization of the BcgI restriction-modification protein for the cleavage of eight phosphodiester bonds in DNA

(2012) Rachel M. Smith et al.   NUCLEIC ACIDS RESEARCH

Structure and cleavage activity of the tetrameric MspJI DNA modification-dependent restriction endonuclease

(2012) John R. Horton et al.   NUCLEIC ACIDS RESEARCH

Sequence, structure and functional diversity of PD-(D/E)XK phosphodiesterase superfamily

(2012) Kamil Steczkiewicz et al.   NUCLEIC ACIDS RESEARCH

Quantitative Sequencing of 5-Methylcytosine and 5-Hydroxymethylcytosine at Single-Base Resolution

(2012) M. J. Booth et al.   SCIENCE

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

(2012) J. Song et al.   SCIENCE

Genome-wide distribution of 5-formylcytosine in embryonic stem cells is associated with transcription and depends on thymine DNA glycosylase

(2012) Eun-Ang Raiber et al.   GENOME BIOLOGY

A dual flip-out mechanism for 5mC recognition by the Arabidopsis SUVH5 SRA domain and its impact on DNA methylation and H3K9 dimethylation in vivo

(2011) E. Rajakumara et al.   GENES & DEVELOPMENT

Thymine DNA Glycosylase Can Rapidly Excise 5-Formylcytosine and 5-Carboxylcytosine

(2011) Atanu Maiti et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Activity, specificity and structure of I-Bth0305I: a representative of a new homing endonuclease family

(2011) Gregory K. Taylor et al.   NUCLEIC ACIDS RESEARCH

Characterization and crystal structure of the type IIG restriction endonuclease RM.BpuSI

(2011) Betty W. Shen et al.   NUCLEIC ACIDS RESEARCH

Comparative characterization of the PvuRts1I family of restriction enzymes and their application in mapping genomic 5-hydroxymethylcytosine

(2011) Hua Wang et al.   NUCLEIC ACIDS RESEARCH

Characterization of PvuRts1I endonuclease as a tool to investigate genomic 5–hydroxymethylcytosine

(2011) Aleksandra Szwagierczak et al.   NUCLEIC ACIDS RESEARCH

The MspJI family of modification-dependent restriction endonucleases for epigenetic studies

(2011) D. Cohen-Karni et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tet-Mediated Formation of 5-Carboxylcytosine and Its Excision by TDG in Mammalian DNA

(2011) Y.-F. He et al.   SCIENCE

Tet Proteins Can Convert 5-Methylcytosine to 5-Formylcytosine and 5-Carboxylcytosine

(2011) S. Ito et al.   SCIENCE

5-Hydroxymethylcytosine is associated with enhancers and gene bodies in human embryonic stem cells

(2011) Hume Stroud et al.   GENOME BIOLOGY

PHENIX: a comprehensive Python-based system for macromolecular structure solution

(2010) Paul D. Adams et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Nucleophile activation in PD…(D/E)xK metallonucleases: An experimental and computational pKa study

(2010) Fuqian Xie et al.   JOURNAL OF INORGANIC BIOCHEMISTRY

One is enough: insights into the two-metal ion nuclease mechanism from global analysis and computational studies

(2010) Cynthia M. Dupureur   Metallomics

Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification

(2010) Shinsuke Ito et al.   NATURE

A unique family of Mrr-like modification-dependent restriction endonucleases

(2010) Yu Zheng et al.   NUCLEIC ACIDS RESEARCH

Dali server: conservation mapping in 3D

(2010) Liisa Holm et al.   NUCLEIC ACIDS RESEARCH

Identification of new homologs of PD-(D/E)XK nucleases by support vector machines trained on data derived from profile-profile alignments

(2010) M. Laganeckas et al.   NUCLEIC ACIDS RESEARCH

Cofactor Requirement of HpyAV Restriction Endonuclease

(2010) Siu-Hong Chan et al.   PLoS One

The Behaviour of 5-Hydroxymethylcytosine in Bisulfite Sequencing

(2010) Yun Huang et al.   PLoS One

Tissue Distribution of 5-Hydroxymethylcytosine and Search for Active Demethylation Intermediates

(2010) Daniel Globisch et al.   PLoS One

Folding, DNA Recognition, and Function of GIY-YIG Endonucleases: Crystal Structures of R.Eco29kI

(2010) Amanda Nga-Sze Mak et al.   STRUCTURE

Unusual Target Site Disruption by the Rare-Cutting HNH Restriction Endonuclease PacI

(2010) Betty W. Shen et al.   STRUCTURE

Structures of restriction endonucleaseHindIII in complex with its cognate DNA and divalent cations

(2009) Nobuhisa Watanabe et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Decision-making in structure solution using Bayesian estimates of map quality: thePHENIX AutoSolwizard

(2009) Thomas C. Terwilliger et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

On the Divalent Metal Ion Dependence of DNA Cleavage by Restriction Endonucleases of the EcoRI Family

(2009) Vera Pingoud et al.   JOURNAL OF MOLECULAR BIOLOGY

Conversion of 5-Methylcytosine to 5-Hydroxymethylcytosine in Mammalian DNA by MLL Partner TET1

(2009) M. Tahiliani et al.   SCIENCE

The Nuclear DNA Base 5-Hydroxymethylcytosine Is Present in Purkinje Neurons and the Brain

(2009) S. Kriaucionis et al.   SCIENCE

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

MmeI: a minimal Type II restriction-modification system that only modifies one DNA strand for host protection

(2008) Richard D. Morgan et al.   NUCLEIC ACIDS RESEARCH