Xiaodong Cheng

发表

Structural characterization and comparative phylogenetic analysis of Escherichia coli HemK, a protein (N5)-glutamine methyltransferase.

R. Roberts, Zhe Yang, L. Shipman, 2004, Journal of molecular biology.

Structure of Dnmt3a bound to Dnmt3L suggests a model for de novo DNA methylation

Xiaodong Cheng, A. Jeltsch, R. Jurkowska, 2007, Nature.

Hhal methyltransferase flips its target base out of the DNA helix

R. Roberts, Xiaodong Cheng, S. Klimašauskas, 1994, Cell.

Structural basis of SETD6-mediated regulation of the NF-kB network via methyl-lysine signaling

Xiaodong Cheng, Xing Zhang, O. Gozani, 2011, Nucleic acids research.

Structural and biochemical advances in mammalian RNAi

Robert E Collins, Xiaodong Cheng, R. Collins, 2006, Journal of cellular biochemistry.

The SET-domain protein superfamily: protein lysine methyltransferases

Xing Zhang, Shane C. Dillon, Xiaodong Cheng, 2005, Genome Biology.

Enyzmes | Mammalian DNA Methyltransferase Structural Themes

Xiaodong Cheng, H. Hashimoto, Sarah C. Stainbrook, 2021, Encyclopedia of Biological Chemistry III.

Mammalian DNA Methyltransferase Structural Themes

Xiaodong Cheng, H. Hashimoto, 2013 .

Mechanisms of DNA methylation, methyl-CpG recognition, and demethylation in mammals

Xiaodong Cheng, Xing Zhang, J. Horton, 2011 .

METTL5, an 18S rRNA-specific m6A methyltransferase, modulates expression of stress response genes

R. Gregory, Yang Shi, Xiaodong Cheng, 2020, bioRxiv.

Mammalian DNA methyltransferases: a structural perspective.

R. Blumenthal, Xiaodong Cheng, 2008, Structure.

Properly Substituted Analogues of BIX-01294 Lose Inhibition of G9a Histone Methyltransferase and Gain Selective Anti-DNA Methyltransferase 3A Activity

E. Novellino, A. Mai, Xiaodong Cheng, 2014, PloS one.

Structural Basis for the Versatile and Methylation-Dependent Binding of CTCF to DNA.

Xiaodong Cheng, V. Corces, Xing Zhang, 2017, Molecular cell.

Dual histone methyl reader ZCWPW1 facilitates repair of meiotic double strand breaks in male mice

A. Nussenzweig, Xiaodong Cheng, Xing Zhang, 2020, eLife.

Response to mackay et Al.

R. Blumenthal, Xiaodong Cheng, 2013, Trends in biochemical sciences.

A common mode of recognition for methylated CpG.

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2013, Trends in biochemical sciences.

DNMT3L connects unmethylated lysine 4 of histone H3 to de novo methylation of DNA

C. Allis, E. Bernstein, H. Erdjument-Bromage, 2007, Nature.

Structure of the predominant protein arginine methyltransferase PRMT1 and analysis of its binding to substrate peptides.

Xing Zhang, Xiaodong Cheng, Xing Zhang, 2003, Structure.

Many paths to methyltransfer: a chronicle of convergence.

R. Blumenthal, Xiaodong Cheng, H. Schubert, 2003, Trends in biochemical sciences.

Protein arginine methyltransferase 1: positively charged residues in substrate peptides distal to the site of methylation are important for substrate binding and catalysis.

Xing Zhang, Paul R Thompson, Xiaodong Cheng, 2007, Biochemistry.

Functional Roles of the Conserved Threonine 250 in the Target Recognition Domain of HhaI DNA Methyltransferase*

Xiaodong Cheng, S. Klimašauskas, E. Weinhold, 2000, The Journal of Biological Chemistry.

Modification-dependent restriction endonuclease, MspJI, flips 5-methylcytosine out of the DNA helix

R. Roberts, Xiaodong Cheng, G. Wilson, 2014, Nucleic acids research.

Restriction Endonucleases: Structure of the Conserved Catalytic Core and the Role of Metal Ions in DNA Cleavage

R. Blumenthal, Xiaodong Cheng, J. Horton, 2004 .

Structure of the Q237W mutant of HhaI DNA methyltransferase: an insight into protein-protein interactions

R. Roberts, Xiaodong Cheng, Xing Zhang, 2004, Biological chemistry.

Structure of the Q 237 W mutant of Hha I DNA methyltransferase : an insight into protein-protein interactions

R. Roberts, Xiaodong Cheng, Xing Zhang, 2004 .

Ectopic DNMT3L Triggers Assembly of a Repressive Complex for Retroviral Silencing in Somatic Cells

S. Goff, Xiaodong Cheng, Hsuan‐Shu Lee, 2014, Journal of Virology.

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

Xing Zhang, Xiaodong Cheng, L. Saleh, 2013, Nature.

Structural basis for human ZBTB7A action at the fetal globin promoter

K. Quinlan, Xiaodong Cheng, Yunyu Shi, 2021, Cell reports.

Biochemical and structural basis for YTH domain of human YTHDC1 binding to methylated adenine in DNA

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2020, Nucleic acids research.

An engineered variant of SETD3 methyltransferase alters target specificity from histidine to lysine methylation

Xiaodong Cheng, Xing Zhang, O. Gozani, 2020, The Journal of Biological Chemistry.

The cell cycle-regulated DNA adenine methyltransferase CcrM opens a bubble at its DNA recognition site

Xiaodong Cheng, N. Reich, Xing Zhang, 2019, Nature Communications.

Structural basis for the target specificity of actin histidine methyltransferase SETD3

Xiaodong Cheng, Xing Zhang, O. Gozani, 2019, Nature Communications.

DNA Conformation Induces Adaptable Binding by Tandem Zinc Finger Proteins

Xiaodong Cheng, Xing Zhang, J. Horton, 2018, Cell.

Structural basis of human PR/SET domain 9 (PRDM9) allele C–specific recognition of its cognate DNA sequence

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2017, The Journal of Biological Chemistry.

Denys-Drash syndrome associated WT1 glutamine 369 mutants have altered sequence-preferences and altered responses to epigenetic modifications

Xiaodong Cheng, G. Wilson, Xing Zhang, 2016, Nucleic acids research.

Structural basis for human PRDM9 action at recombination hot spots

Xiaodong Cheng, G. Wilson, Xing Zhang, 2016, Genes & development.

Structure of Naegleria Tet-like dioxygenase (NgTet1) in complexes with a reaction intermediate 5-hydroxymethylcytosine DNA

Xing Zhang, Xiaodong Cheng, Xing Zhang, 2015, Nucleic acids research.

Structural and Functional Consequences of Circular Permutation on the Active Site of Old Yellow Enzyme

Xiaodong Cheng, J. Horton, S. Lutz, 2014, ACS catalysis.

Activity and crystal structure of human thymine DNA glycosylase mutant N140A with 5-carboxylcytosine DNA at low pH.

Xiaodong Cheng, Xing Zhang, H. Hashimoto, 2013, DNA repair.

DNA recognition of 5-carboxylcytosine by a Zfp57 mutant at an atomic resolution of 0.97 Å.

Xiaodong Cheng, Xing Zhang, Yiwei Liu, 2013, Biochemistry.

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

Xiaodong Cheng, A. Bhagwat, Xing Zhang, 2012, Nucleic acids research.

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

Xiaodong Cheng, Xing Zhang, H. Sasaki, 2012, Genes & development.

Excision of thymine and 5-hydroxymethyluracil by the MBD4 DNA glycosylase domain: structural basis and implications for active DNA demethylation

Xiaodong Cheng, Xing Zhang, H. Hashimoto, 2012, Nucleic acids research.

Structural basis for G9a-like protein lysine methyltransferase inhibition by BIX-01294

J. Snyder, Xiaodong Cheng, Xing Zhang, 2009, Nature Structural &Molecular Biology.

Mapping of protein-protein interaction sites by the 'absence of interference' approach.

R. Reinhardt, Xiaodong Cheng, A. Jeltsch, 2008, Journal of molecular biology.

Lin28A Binds Active Promoters and Recruits Tet1 to Regulate Gene Expression.

Heng Zhu, Peng Jin, Jun Wan, 2016, Molecular cell.

Structural and sequence motifs of protein (histone) methylation enzymes.

Robert E Collins, Xiaodong Cheng, Xing Zhang, 2005, Annual review of biophysics and biomolecular structure.

The inactive Dnmt3b3 isoform preferentially enhances Dnmt3b-mediated DNA methylation

Xiaodong Cheng, Xing Zhang, Taiping Chen, 2020, Genes & development.

Surface-scanning mutational analysis of protein arginine methyltransferase 1: roles of specific amino acids in methyltransferase substrate specificity, oligomerization, and coactivator function.

Xiaodong Cheng, Xing Zhang, M. Stallcup, 2007, Molecular endocrinology.

Cytosines do it, thymines do it, even pseudouridines do it--base flipping by an enzyme that acts on RNA.

R. Blumenthal, Xiaodong Cheng, 2002, Structure.

Structure of HinP1I endonuclease reveals a striking similarity to the monomeric restriction enzyme MspI

R. Roberts, Zhe Yang, Xiaodong Cheng, 2005, Nucleic acids research.

The ZBTB24-CDCA7 axis regulates HELLS enrichment at centromeric satellite repeats to facilitate DNA methylation

Xiaodong Cheng, Kevin M. McBride, Xiaodong Cheng, 2020, Protein & Cell.

ZBTB24 regulates gene transcription by recognizing the core promoter of CDCA7

Xiaodong Cheng, Xing Zhang, J. Horton, 2019, Acta Crystallographica Section A Foundations and Advances.

A placental growth factor is silenced in mouse embryos by the zinc finger protein ZFP568

Xiaodong Cheng, Yixuan Wang, T. Macfarlan, 2017, Science.

Structural basis for human PHF2 Jumonji domain interaction with metal ions.

Xiaodong Cheng, Xing Zhang, J. Horton, 2011, Journal of molecular biology.

Lysine methylation of the NF-κB subunit RelA by SETD6 couples activity of the histone methyltransferase GLP at chromatin to tonic repression of NF-κB signaling

Ruth I. Tennen, B. Garcia, C. Liu, 2011, Nature Immunology.

In Vitro and in Vivo Analyses of a Phe/Tyr Switch Controlling Product Specificity of Histone Lysine Methyltransferases*

E. Selker, Xiaodong Cheng, Y. Shinkai, 2005, Journal of Biological Chemistry.

Structure of the Neurospora SET Domain Protein DIM-5, a Histone H3 Lysine Methyltransferase

E. Selker, Xiaodong Cheng, Xing Zhang, 2002, Cell.

Human HemK2/KMT9/N6AMT1 is an active protein methyltransferase, but does not act on DNA in vitro, in the presence of Trm112

Xiaodong Cheng, Xing Zhang, Dan Yu, 2019, Cell Discovery.

MPP8 mediates the interactions between DNA methyltransferase Dnmt3a and H3K9 methyltransferase GLP/G9a.

Xiaodong Cheng, Y. Shinkai, Xing Zhang, 2011, Nature communications.

Selective Non-nucleoside Inhibitors of Human DNA Methyltransferases Active in Cancer Including in Cancer Stem Cells

Ettore Novellino, Sandro Cosconati, Xing Zhang, 2014, Journal of medicinal chemistry.

Differential ETS1 binding to T:G mismatches within a CpG dinucleotide contributes to C-to-T somatic mutation rate of the IDH2 hotspot at codon Arg140.

Jie Yang, R. Blumenthal, Xiaodong Cheng, 2022, DNA repair.

transcriptional regulatory protein VP 16 Crystal structure of the conserved core of the herpes simplex virus

W. Herr, Xiaodong Cheng, W. Gong, 1999 .

Structural Basis for KDM5A Histone Lysine Demethylase Inhibition by Diverse Compounds.

Margaret A. Johns, D. Urban, A. Jadhav, 2016, Cell chemical biology.

HIC2 controls developmental hemoglobin switching by repressing BCL11A transcription

R. Hardison, B. Giardine, C. Keller, 2021, Nature Genetics.

A Role for N6-Methyladenine in DNA Damage Repair.

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2020, Trends in biochemical sciences.

Dual Histone Methyl Reader ZCWPW1 Facilitates Repair of Meiotic Double Strand Breaks

A. Nussenzweig, Xiaodong Cheng, Xing Zhang, 2019, bioRxiv.

Structure and substrate recognition of the Escherichia coli DNA adenine methyltransferase.

Xiaodong Cheng, A. Jeltsch, J. Horton, 2006, Journal of molecular biology.

Selective excision of 5-carboxylcytosine by a thymine DNA glycosylase mutant.

Xiaodong Cheng, Xing Zhang, H. Hashimoto, 2013, Journal of molecular biology.

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

S. Jacobsen, Xiaodong Cheng, M. Bostick, 2008, Nature.

The carboxy-terminal domain of ROS1 is essential for 5-methylcytosine DNA glycosylase activity.

Xiaodong Cheng, Xing Zhang, H. Hashimoto, 2014, Journal of molecular biology.

DNA nicking by HinP1I endonuclease: bending, base flipping and minor groove expansion

R. Roberts, Zhe Yang, Xiaodong Cheng, 2006, Nucleic acids research.

Structure of the SANT domain from the Xenopus chromatin remodeling factor ISWI

Xiaodong Cheng, Xing Zhang, P. Wade, 2007, Proteins.

The structure of bacteriophage T 7 lysozyme , a zinc amidase and an inhibitor of T 7 RNA polymerase

J. Pflugrath, Xiaodong Cheng, F. W. STUDIERt, 2004 .

Structure-Based Engineering of Irreversible Inhibitors against Histone Lysine Demethylase KDM5A.

A. Jadhav, M. Hall, A. Simeonov, 2018, Journal of medicinal chemistry.

Enzymatic characterization of mRNA cap adenosine-N6 methyltransferase PCIF1 activity on uncapped RNAs

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2022, The Journal of biological chemistry.

Synergy among Nuclear Receptor Coactivators: Selective Requirement for Protein Methyltransferase and Acetyltransferase Activities

Xiaodong Cheng, Xing Zhang, M. Stallcup, 2002, Molecular and Cellular Biology.

Differential Binding of cAMP-dependent Protein Kinase Regulatory Subunit Isoforms Iα and IIβ to the Catalytic Subunit*

Susan S. Taylor, Xiaodong Cheng, C. Phelps, 2001, The Journal of Biological Chemistry.

Discovery of a first-in-class reversible DNMT1-selective inhibitor with improved tolerability and efficacy in acute myeloid leukemia

Peter A. Jones, Philip J. Chapman, P. Grandi, 2021, Nature Cancer.

Structural domains in RNAi

Xiaodong Cheng, R. Collins, 2005, FEBS letters.

Structural basis for inhibition of histamine N-methyltransferase by diverse drugs.

Xiaodong Cheng, M. Nishibori, J. Horton, 2005, Journal of molecular biology.

1 Protein Methyltransferases: Their Distribution Among the Five Structural Classes of AdoMet-Dependent Methyltransferases.

R. Blumenthal, Xiaodong Cheng, H. Schubert, 2006, The Enzymes.

Crystal structure of the Hhal DNA methyltransferase complexed with S-adenosyl-l-methionine

Richard J. Roberts, R. Roberts, J. Pflugrath, 1993, Cell.

Coordinated methyl-lysine erasure: structural and functional linkage of a Jumonji demethylase domain and a reader domain.

Xing Zhang, Xiaodong Cheng, Xing Zhang, 2011, Current opinion in structural biology.

High-resolution enzymatic mapping of genomic 5-hydroxymethylcytosine in mouse embryonic stem cells.

Xiaodong Cheng, S. Pradhan, Jolyon Terragni, 2013, Cell reports.

Phosphorylation-mediated inactivation of coactivator-associated arginine methyltransferase 1

Wei Xu, Xiaodong Cheng, W. Xu, 2007, Proceedings of the National Academy of Sciences.

Effect of site-directed PEGylation of trichosanthin on its biological activity, immunogenicity, and pharmacokinetics.

Xiaodong Cheng, Zhikai Xu, Rui Chen, 2007, Biomolecular engineering.

Mapping the antigenic determinants and reducing the immunogenicity of trichosanthin by site-directed mutagenesis.

Xiaodong Cheng, Zhikai Xu, Y. Lei, 2006, Journal of biomedical science.

Structural basis of allele variation of human thiopurine‐S‐methyltransferase

Xiaodong Cheng, M. Vedadi, A. Bochkarev, 2007, Proteins.

Coordinated chromatin control: structural and functional linkage of DNA and histone methylation.

R. Blumenthal, Xiaodong Cheng, 2010, Biochemistry.

Dynamics of histone lysine methylation: structures of methyl writers and erasers.

Xiaodong Cheng, A. Upadhyay, 2011, Progress in drug research. Fortschritte der Arzneimittelforschung. Progres des recherches pharmaceutiques.

Methylation On The Nucleosome: From Dna To Histone

Xiaodong Cheng, D. Jia, 2009 .

Recognition of unmethylated histone H3 lysine 4 links BHC80 to LSD1-mediated gene repression

Yang Shi, Fei Lan, Or Gozani, 2007, Nature.

Structural dynamics of protein lysine methylation and demethylation.

Xiaodong Cheng, Xing Zhang, 2007, Mutation research.

Regulation of estrogen receptor alpha by the SET7 lysine methyltransferase.

Xiaodong Cheng, D. Jia, P. Vertino, 2008, Molecular cell.

Preferential CEBP binding to T:G mismatches and increased C-to-T human somatic mutations

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2021, Nucleic acids research.

Recognition and potential mechanisms for replication and erasure of cytosine hydroxymethylation

Xiaodong Cheng, Xing Zhang, P. Vertino, 2012, Nucleic acids research.

The Molecular Basis of Histone Demethylation

Xiaodong Cheng, J. Horton, Q. Yan, 2017 .

Determinants of the Interaction of the Spinal Muscular Atrophy Disease Protein SMN with the Dimethylarginine-modified Box H/ACA Small Nucleolar Ribonucleoprotein GAR1*

Xiaodong Cheng, R. Terns, M. Terns, 2002, The Journal of Biological Chemistry.

Structural basis for Klf4 recognition of methylated DNA

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2014, Nucleic acids research.

Adding a lysine mimic in the design of potent inhibitors of histone lysine methyltransferases.

Aiming Sun, Yoichi Shinkai, James P Snyder, 2010, Journal of molecular biology.

Enzymatic characterization of three human RNA adenosine methyltransferases reveals diverse substrate affinities and reaction optima

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2021, The Journal of biological chemistry.

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

R. Reinhardt, Xiaodong Cheng, A. Jeltsch, 2008, Nucleic acids research.

The PWWP domain of mammalian DNA methyltransferase Dnmt3b defines a new family of DNA-binding folds

Xiaodong Cheng, Xing Zhang, C. Qiu, 2002, Nature Structural Biology.

hNaa10p contributes to tumorigenesis by facilitating DNMT1-mediated tumor suppressor gene silencing.

Xiaodong Cheng, L. Juan, M. Hsiao, 2010, The Journal of clinical investigation.

Introduction--Epiphanies in epigenetics.

R. Blumenthal, Xiaodong Cheng, 2011, Progress in molecular biology and translational science.

Molecular coupling of DNA methylation and histone methylation.

Xiaodong Cheng, P. Vertino, H. Hashimoto, 2010, Epigenomics.

Hashimoto , Vertino &

Xiaodong Cheng, P. Vertino, H. Hashimoto, 2010 .

KRAB domain of ZFP568 disrupts TRIM28-mediated abnormal interactions in cancer cells

Xiaodong Cheng, Xing Zhang, M. Barton, 2020, NAR cancer.

Lin 28 A Binds Active Prom oters and Recruits Tet 1 to Regulate Gene Expression Graphical

Jun Wan, G. Ming, Hongjun Song, 2016 .

5-hmC–mediated epigenetic dynamics during postnatal neurodevelopment and aging

Peng Jin, Xuekun Li, Hao Wu, 2011, Nature Neuroscience.

Structural basis of specific DNA binding by the transcription factor ZBTB24

A. Singh, Xiaodong Cheng, Xing Zhang, 2019, Nucleic acids research.

Discovery of a Novel Chemotype of Histone Lysine Methyltransferase EHMT1/2 (GLP/G9a) Inhibitors: Rational Design, Synthesis, Biological Evaluation, and Co-crystal Structure.

E. Novellino, Xiaodong Cheng, G. Sbardella, 2019, Journal of medicinal chemistry.

ZNF410 uniquely activates the NuRD component CHD4 to silence fetal hemoglobin expression

R. Hardison, B. Giardine, C. Keller, 2020, bioRxiv.

Human FMRP contains an integral tandem Agenet (Tudor) and KH motif in the amino terminal domain.

S. Warren, Xiaodong Cheng, H. Hashimoto, 2015, Human molecular genetics.

Heterologous Replicase from Cucumoviruses can Replicate Viral RNAs, but is Defective in Transcribing Subgenomic RNA4A or Facilitating Viral Movement

Xiaodong Cheng, Zhouhang Gu, Qiansheng Liao, 2018, Viruses.

An analog of BIX-01294 selectively inhibits a family of histone H3 lysine 9 Jumonji demethylases.

A. Mai, Y. Yoon, Xiaodong Cheng, 2012, Journal of molecular biology.

Methyl-Lysine Recognition by Ankyrin-Repeat Proteins

Xiaodong Cheng, R. Collins, 2015 .

A case study in cross-talk: the histone lysine methyltransferases G9a and GLP

Xiaodong Cheng, R. Collins, 2010, Nucleic acids research.

Continuous enzymatic assay for histone lysine methyltransferases.

Xiaodong Cheng, A. Jeltsch, Philipp Rathert, 2007, BioTechniques.

Structural basis for the product specificity of histone lysine methyltransferases.

E. Selker, Zhe Yang, Xiaodong Cheng, 2003, Molecular cell.

Human MettL3-MettL14 RNA adenine methyltransferase complex is active on double-stranded DNA containing lesions

R. Blumenthal, Xiaodong Cheng, M. Vedadi, 2021, Nucleic acids research.

The non-specific adenine DNA methyltransferase M.EcoGII

R. Roberts, Xiaodong Cheng, R. Morgan, 2017, Nucleic acids research.

The non-specific adenine DNA methyltransferase M.EcoGII

Richard, R. Roberts, Xiaodong Cheng, 2017, Nucleic acids research.

MAX is an epigenetic sensor of 5-carboxylcytosine and is altered in multiple myeloma

S. Lonial, Xiaodong Cheng, Xing Zhang, 2016, Nucleic acids research.

Structural and Biochemical Advances in Mammalian DNA Methylation

R. Blumenthal, Xiaodong Cheng, 2009 .

Trimethylated lysine 9 of histone H3 is a mark for DNA methylation in Neurospora crassa

C. Allis, S. Grewal, E. Selker, 2003, Nature Genetics.

The Role of N-α-acetyltransferase 10 Protein in DNA Methylation and Genomic Imprinting.

Xiaodong Cheng, L. Juan, Yi Zhang, 2017, Molecular cell.

Methyl-dependent and spatial-specific DNA recognition by the orthologous transcription factors human AP-1 and Epstein-Barr virus Zta

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2017, Nucleic acids research.

Wilms tumor protein recognizes 5-carboxylcytosine within a specific DNA sequence

Xiaodong Cheng, G. Wilson, Xing Zhang, 2014, Genes & development.

The Role of N-alpha-acetyltransferase 10 Protein in DNA Methylation and Genomic Imprinting

Yi, Zhang, Xiaodong Cheng, 2022 .

Beta class amino methyltransferases from bacteria to humans: evolution and structural consequences

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2020, Nucleic acids research.

JMB Special Issue on "Reading DNA and RNA methylation" Detection of DNA modifications by sequence-specific transcription factors.

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2020, Journal of molecular biology.

Human MettL3–MettL14 complex is a sequence-specific DNA adenine methyltransferase active on single-strand and unpaired DNA in vitro

Xiaodong Cheng, M. Vedadi, Xing Zhang, 2019, Cell Discovery.

Human HemK2/KMT9/N6AMT1 is an active protein methyltransferase, but does not act on DNA in vitro, in the presence of Trm112

Xiaodong Cheng, Xing Zhang, Dan Yu, 2019, Cell Discovery.

Genetic heterogeneity within collective invasion packs drives leader and follower cell phenotypes

J. Konen, A. Marcus, Xiaodong Cheng, 2019, Journal of Cell Science.

Nab2p Is Required for Poly(A) RNA Export in Saccharomyces cerevisiae and Is Regulated by Arginine Methylation via Hmt1p*

Xiaodong Cheng, Xing Zhang, A. Corbett, 2002, The Journal of Biological Chemistry.

The Ubiquitin Binding Domain ZnF UBP Recognizes the C-Terminal Diglycine Motif of Unanchored Ubiquitin

Xiaodong Cheng, K. Wilkinson, J. Horton, 2006, Cell.

Characterization of a Linked Jumonji Domain of the KDM5/JARID1 Family of Histone H3 Lysine 4 Demethylases*

Margaret A. Johns, Xiaodong Cheng, H. Fu, 2015, The Journal of Biological Chemistry.

Antitumor effects of iridomyrmecin in HeLa cervical cancer cells are mediated via apoptosis induction, loss of mitochondrial membrane potential, cell cycle arrest and down-regulation of PI3K/Akt and up-regulation of lncRNA CCAT2 expression

Xiaodong Cheng, Tao Wang, Li Lin, 2016 .

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

Xiaodong Cheng, S. Pradhan, H. Chin, 2015, Nucleic acids research.

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

Xiaodong Cheng, G. Wilson, Shuang-yong Xu, 2014, Scientific Reports.

DNA Base Flipping: A General Mechanism for Writing, Reading, and Erasing DNA Modifications.

Xiaodong Cheng, Samuel Hong, 2016, Advances in experimental medicine and biology.

The Mechanisms of Generation, Recognition, and Erasure of DNA 5-Methylcytosine and Thymine Oxidations*

Xiaodong Cheng, Xing Zhang, P. Vertino, 2015, The Journal of Biological Chemistry.

Dimethylation of histone H3 lysine 9 is a critical mark for DNA methylation and gene silencing in Arabidopsis thaliana

Lianna Johnson, J. P. Jackson, Ingo Schubert, 2004, Chromosoma.

Detecting and interpreting DNA methylation marks.

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2018, Current opinion in structural biology.

KDM5 histone demethylases repress immune response via suppression of STING

Xin Hu, A. Jadhav, M. Hall, 2018, PLoS biology.

Structural and functional coordination of DNA and histone methylation.

Xiaodong Cheng, 2014, Cold Spring Harbor perspectives in biology.

Transition from Nonspecific to Specific DNA Interactions along the Substrate-Recognition Pathway of Dam Methyltransferase

Albert Jeltsch, Xiaodong Cheng, S. Hattman, 2005, Cell.

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

Xiaodong Cheng, Xing Zhang, J. Horton, 2009, Epigenetics.

Analysis of the substrate specificity of the Dim-5 histone lysine methyltransferase using peptide arrays.

Albert Jeltsch, Xing Zhang, Christian Freund, 2008, Chemistry & biology.

Histone H3 N-terminal mimicry drives a novel network of methyl-effector interactions

Xiaodong Cheng, J. Horton, M. Bedford, 2021, The Biochemical journal.

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

R. Roberts, Xiaodong Cheng, Xing Zhang, 2012, Nucleic acids research.

The ankyrin repeats of G9a and GLP histone methyltransferases are mono- and dimethyllysine binding modules

Xing Zhang, Robert E Collins, Xiaodong Cheng, 2008, Nature Structural &Molecular Biology.

S-adenosylmethionine-dependent methyltransferases : structures and functions

R. Blumenthal, Xiaodong Cheng, Xiaodong Cheng, 1999 .

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

Xiaodong Cheng, S. Pradhan, J. Horton, 2011, Nature Structural &Molecular Biology.

Protein lysine methyltransferase G9a acts on non-histone targets.

Xiaodong Cheng, A. Jeltsch, R. Jurkowska, 2008, Nature chemical biology.

Structure of the SET domain histone lysine methyltransferase Clr4

Jinrong Min, J. Min, S. Grewal, 2002, Nature Structural Biology.

Mismatch Repair in Methylated DNA

Xiaodong Cheng, A. Bhagwat, Xing Zhang, 2003, The Journal of Biological Chemistry.

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

Xiaodong Cheng, G. Wilson, Xing Zhang, 2014, Nucleic acids research.

Structural characterization of dicyanopyridine containing DNMT1-selective, non-nucleoside inhibitors.

Xiaodong Cheng, Xing Zhang, M. Pappalardi, 2022, Structure.

Repurposing epigenetic inhibitors to target the Clostridioides difficile-specific DNA adenine methyltransferase and sporulation regulator CamA

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2021, Epigenetics.

Distinctive Klf4 mutants determine preference for DNA methylation status

R. Blumenthal, P. Jin, Xiaodong Cheng, 2016, Nucleic acids research.

Enzymatic and structural insights for substrate specificity of a family of jumonji histone lysine demethylases

Yang Shi, Xing Zhang, Yang Shi, 2010, Nature Structural &Molecular Biology.

Structure of the Conserved Core of the Yeast Dot1p, a Nucleosomal Histone H3 Lysine 79 Methyltransferase*

Zhe Yang, Xiaodong Cheng, Xing Zhang, 2004, Journal of Biological Chemistry.

Structural basis for effects of CpA modifications on C/EBPβ binding of DNA

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2018, Nucleic acids research.

The ankyrin repeat domain of Huntingtin interacting protein 14 contains a surface aromatic cage, a potential site for methyl‐lysine binding

Xiaodong Cheng, A. Jeltsch, Rongguang Zhang, 2009, Proteins.

Structural basis for preferential binding of human TCF4 to DNA containing 5-carboxylcytosine

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2019, Nucleic acids research.

Role for first zinc finger of WT1 in DNA sequence specificity: Denys–Drash syndrome-associated WT1 mutant in ZF1 enhances affinity for a subset of WT1 binding sites

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2017, Nucleic acids research.

Comprehensive Alanine-scanning Mutagenesis of Escherichia coli CsrA Defines Two Subdomains of Critical Functional Importance*

Xiaodong Cheng, P. Babitzke, T. Romeo, 2006, Journal of Biological Chemistry.

Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2015, Nucleic acids research.

Biochemical characterization of a Naegleria TET-like oxygenase and its application in single molecule sequencing of 5-methylcytosine

R. Roberts, Xiaodong Cheng, J. Bitinaite, 2015, Proceedings of the National Academy of Sciences.

Two Alternative Conformations of S-Adenosyl-L-homocysteine Bound to Escherichia coli DNA Adenine Methyltransferase and the Implication of Conformational Changes in Regulating the Catalytic Cycle*

Xiaodong Cheng, A. Jeltsch, J. Horton, 2007, Journal of Biological Chemistry.

Crosstalk between Lys63- and Lys11-polyubiquitin signaling at DNA damage sites is driven by Cezanne

Xiaodong Cheng, D. Fushman, Xiao Wu, 2019, Genes & development.

The Structure of RalF, an ADP-ribosylation Factor Guanine Nucleotide Exchange Factor from Legionella pneumophila, Reveals the Presence of a Cap over the Active Site*

R. Kahn, Xiaodong Cheng, H. Nagai, 2005, Journal of Biological Chemistry.

Structures of HhaI methyltransferase complexed with substrates containing mismatches at the target base

R. Roberts, Xiaodong Cheng, J. Horton, 1998, Nature Structural Biology.

A Hypomorphic Lsd1 Allele Results in Heart Development Defects in Mice

A. Singh, M. Labow, E. Li, 2013, PloS one.

Discovery and structural characterization of a small molecule 14-3-3 protein-protein interaction inhibitor

F. Khuri, Xiaodong Cheng, H. Fu, 2011, Proceedings of the National Academy of Sciences.

SETD6 lysine methylation of RelA couples GLP activity at chromatin to tonic repression of NF-κB signaling

Ruth I. Tennen, B. Garcia, C. Liu, 2010, Nature Immunology.

Caught in the act: visualization of an intermediate in the DNA base-flipping pathway induced by HhaI methyltransferase.

Alexander D. MacKerell, Xiaodong Cheng, N. Banavali, 2004, Nucleic acids research.

4 Structure of protein arginine methyltransferases.

Xiaodong Cheng, Xing Zhang, 2006, The Enzymes.

Clostridioides difficile specific DNA adenine methyltransferase CamA squeezes and flips adenine out of DNA helix

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2021, Nature Communications.

Structural basis for transcription factor ZBTB7A recognition of DNA and effects of ZBTB7A somatic mutations that occur in human acute myeloid leukemia

Jie Yang, R. Blumenthal, Xiaodong Cheng, 2023, The Journal of biological chemistry.

SETD 6 lysine methylation of RelA couples GLP activity at chromatin to tonic repression of NF-κ B signaling

Ruth I. Tennen, C. Liu, A. Tarakhovsky, 2012 .

Chemoproteomic Study Uncovers HemK2/KMT9 As a New Target for NTMT1 Bisubstrate Inhibitors.

Xiaodong Cheng, N. Noinaj, Dan Yu, 2021, ACS chemical biology.

Chemoproteomic study uncovers HemK2/KMT9 as a new target for NTMT1 bisubstrate inhibitors

Xiaodong Cheng, N. Noinaj, Dan Yu, 2021, bioRxiv.

Structural redesign of lipase B from Candida antarctica by circular permutation and incremental truncation.

Xiaodong Cheng, J. Horton, S. Lutz, 2009, Journal of molecular biology.

MBD5 and MBD6 couple DNA methylation to gene silencing through the J-domain protein SILENZIO

S. Jacobsen, Xiaodong Cheng, S. Feng, 2021, Science.

Characterization of SETD3 methyltransferase–mediated protein methionine methylation

Matthew V. Holt, Xiaodong Cheng, Xing Zhang, 2020, The Journal of Biological Chemistry.

Structures of Yeast ARF2 and ARL1 DISTINCT ROLES FOR THE N TERMINUS IN THE STRUCTURE AND FUNCTION OF ARF FAMILY GTPases*

D. Ringe, R. Kahn, Xiaodong Cheng, 2001 .

Structure of the bacteriophage T4 DNA adenine methyltransferase

Zhe Yang, Xiaodong Cheng, S. Hattman, 2003, Nature Structural Biology.

A Taq attack displaces bases

R. Blumenthal, Xiaodong Cheng, 2001, Nature Structural Biology.

Human MettL3-MettL14 complex is a sequence-specific DNA adenine methyltransferase active on single-strand and unpaired DNA in vitro.

Xiaodong Cheng, M. Vedadi, Xing Zhang, 2019, Cell discovery.

Structures of Yeast ARF2 and ARL1

D. Ringe, R. Kahn, Xiaodong Cheng, 2001, The Journal of Biological Chemistry.

How is modification of the DNA substrate recognized by the PvuII restriction endonuclease

Xiaodong Cheng, J. Bonventre, J. Horton, 1999 .

How Is Modification of the DNA Substrate Recognized by the Pvull Restriction Endonuclease?

Xiaodong Cheng, J. Horton, J. Bonventre, 1998, Biological chemistry.

Insights into the Action of Inhibitor Enantiomers against Histone Lysine Demethylase 5A.

A. Jadhav, M. Hall, A. Simeonov, 2018, Journal of medicinal chemistry.

SETD3 is an Actin Histidine Methyltransferase that Prevents Primary Dystocia

Joshua E. Elias, J. Spudich, J. Carette, 2018, Nature.

Zebularine: a novel DNA methylation inhibitor that forms a covalent complex with DNA methyltransferases.

Lei Zhou, Xiaodong Cheng, D. Hornby, 2002, Journal of molecular biology.

SETD3 is an Actin Histidine Methyltransferase that Prevents Primary Dystocia

Joshua E. Elias, Xiaodong Cheng, J. Spudich, 2018, Nature.

The ZBTB24-CDCA7 axis regulates HELLS enrichment at centromeric satellite repeats to facilitate DNA methylation

Kevin M. McBride, Xiaodong Cheng, Hongbo Zhao, 2020, Protein & Cell.

DNA modification by methyltransferases.

Xiaodong Cheng, X. Cheng, 1995, Current opinion in structural biology.

Structural basis for preferential binding of human TCF4 to DNA containing 5-carboxylcytosine

R. Blumenthal, Xiaodong Cheng, Xing Zhang, 2019, Nucleic acids research.

Enzymatic C5-cytosine methylation of DNA: mechanistic implications of new crystal structures for HhaL methyltransferase-DNA-AdoHcy complexes.

R. Roberts, Xiaodong Cheng, S. Klimašauskas, 1996, Journal of molecular biology.

HIC2 controls developmental hemoglobin switching by repressing BCL11A transcription

R. Hardison, B. Giardine, C. Keller, 2022, Nature Genetics.

Interactive and Dominant Effects of Residues 128 and 141 on Cyclic Nucleotide and DNA Bindings in Escherichia coli cAMP Receptor Protein*

J. Lee, Xiaodong Cheng, 1998, The Journal of Biological Chemistry.

Structural basis of specific DNA binding by the transcription factor ZBTB24

A. Singh, Xiaodong Cheng, Xing Zhang, 2019, Nucleic acids research.

Crystal structure of the conserved core of the herpes simplex virus transcriptional regulatory protein VP16.

W. Herr, Xiaodong Cheng, W. Gong, 1999, Genes & development.

Structure of PvuII endonuclease with cognate DNA.

Xiaodong Cheng, X. Cheng, John E. Anderson, 1994, The EMBO journal.

Human TCF4 C-terminal bHLH domain in Complex with 11-bp Oligonucleotide Containing E-box Sequence

Jie Yang, R. Blumenthal, Xiaodong Cheng, 2019 .

Structural Basis for KDM5A Histone Lysine Demethylase Inhibition by Diverse Compounds.

Margaret A. Johns, D. Urban, A. Jadhav, 2016, Cell chemical biology.

hNaa10p contributes to tumorigenesis by facilitating DNMT1-mediated tumor suppressor gene silencing.

Xiaodong Cheng, L. Juan, M. Hsiao, 2010, The Journal of clinical investigation.

Expression, purification, crystallization, and preliminary x-ray analysis of casein kinase-1 from Schizosaccharomyces pombe.

B. Chait, J. Kuret, Xiaodong Cheng, 1994, The Journal of biological chemistry.

Structure-guided analysis reveals nine sequence motifs conserved among DNA amino-methyltransferases, and suggests a catalytic mechanism for these enzymes.

R. Blumenthal, Xiaodong Cheng, R. Blumenthal, 1995, Journal of molecular biology.

Characterization of How DNA Modifications Affect DNA Binding by C2H2 Zinc Finger Proteins.

Xiaodong Cheng, H. Hashimoto, X. Zhang, 2016, Methods in enzymology.

Structure of HhaI endonuclease with cognate DNA at an atomic resolution of 1.0 Å

R. Roberts, Xiaodong Cheng, G. Wilson, 2019, Nucleic acids research.

Structure of Dnmt3a bound to Dnmt3L suggests a model for de novo DNA methylation

Xiaodong Cheng, A. Jeltsch, R. Jurkowska, 2007, Nature.

Nab 2 p Is Required for Poly ( A ) RNA Export in Saccharomyces cerevisiae and Is Regulated by Arginine Methylation via Hmt 1 p *

Xiaodong Cheng, Xing Zhang, A. Corbett, 2002 .

Structural characterization of dicyanopyridine containing DNMT1-selective, non-nucleoside inhibitors.

Xiaodong Cheng, Xing Zhang, M. Pappalardi, 2022, Structure.