Multi-substrate selectivity based on key loops and non-homologous domains: new insight into ALKBH family

Mammalian ALKBH1 serves as an N6-mA demethylase of unpairing DNA

(2020) Min Zhang et al.   CELL RESEARCH

Structural basis of nucleic acid recognition and 6mA demethylation by human ALKBH1

(2020) Li-Fei Tian et al.   CELL RESEARCH

RaacLogo: a new sequence logo generator by using reduced amino acid clusters

(2020) Lei Zheng et al.   BRIEFINGS IN BIOINFORMATICS

Expression of Demethylase Genes, FTO and ALKBH1, Is Associated with Prognosis of Gastric Cancer

(2019) Yue Li et al.   DIGESTIVE DISEASES AND SCIENCES

Structural insights into FTO’s catalytic mechanism for the demethylation of multiple RNA substrates

(2019) Xiao Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

FTO controls reversible m6Am RNA methylation during snRNA biogenesis

(2019) Jan Mauer et al.   Nature Chemical Biology

RNA N6-methyladenosine demethylase FTO promotes breast tumor progression through inhibiting BNIP3

(2019) Yi Niu et al.   Molecular Cancer

Recessive Truncating Mutations in ALKBH8 Cause Intellectual Disability and Severe Impairment of Wobble Uridine Modification

(2019) Dorota Monies et al.   AMERICAN JOURNAL OF HUMAN GENETICS

ALKBH5 inhibited autophagy of epithelial ovarian cancer through miR-7 and BCL-2

(2019) Hongtao Zhu et al.   JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH

Where, When, and How: Context-Dependent Functions of RNA Methylation Writers, Readers, and Erasers

(2019) Hailing Shi et al.   MOLECULAR CELL

DNA repair enzymes ALKBH2, ALKBH3, and AlkB oxidize 5-methylcytosine to 5-hydroxymethylcytosine, 5-formylcytosine and 5-carboxylcytosine in vitro

(2019) Ke Bian et al.   NUCLEIC ACIDS RESEARCH

Identification of entacapone as a chemical inhibitor of FTO mediating metabolic regulation through FOXO1

(2019) Shiming Peng et al.   Science Translational Medicine

AlkB Homologue 1 Demethylates N3-Methylcytidine in mRNA of Mammals

(2019) Cheng-Jie Ma et al.   ACS Chemical Biology

m6A mRNA demethylase FTO regulates melanoma tumorigenicity and response to anti-PD-1 blockade

(2019) Seungwon Yang et al.   Nature Communications

Mitochondrial Alkbh1 localizes to mtRNA granules and its knockdown induces the mitochondrial UPR in humans and C. elegans

(2019) Anita Wagner et al.   JOURNAL OF CELL SCIENCE

Epigenetic regulation of m6A modifications in human cancer

(2019) Wei Zhao et al.   Molecular Therapy-Nucleic Acids

A Single-Turnover Kinetic Study of DNA Demethylation Catalyzed by Fe(II)/α-Ketoglutarate-Dependent Dioxygenase AlkB

(2019) Lyubov Yu. Kanazhevskaya et al.   MOLECULES

Escherichia coli single-stranded DNA binding protein SSB promotes AlkB-mediated DNA dealkylation repair

(2018) Richa Nigam et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

m 6 A demethylase FTO facilitates tumor progression in lung squamous cell carcinoma by regulating MZF1 expression

(2018) Jiqin Liu et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Characterization of human AlkB homolog 1 produced in mammalian cells and demonstration of mitochondrial dysfunction in ALKBH1-deficient cells

(2018) Tina A. Müller et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Function determinants of TET proteins: the arrangements of sequence motifs with specific codes

(2018) Dongyang Liu et al.   BRIEFINGS IN BIOINFORMATICS

RNA N6-methyladenosine modification in cancers: current status and perspectives

(2018) Xiaolan Deng et al.   CELL RESEARCH

ALKBH5-induced demethylation of mono- and dimethylated adenosine

(2018) Timm T. Ensfelder et al.   CHEMICAL COMMUNICATIONS

FTO-Dependent m6A Regulates Cardiac Function During Remodeling and Repair

(2018) Prabhu Mathiyalagan et al.   CIRCULATION

Association of AlkB homolog 3 expression with tumor recurrence and unfavorable prognosis in hepatocellular carcinoma

(2018) Qian Wang et al.   JOURNAL OF GASTROENTEROLOGY AND HEPATOLOGY

Escherichia coli AlkB and single-stranded DNA binding protein SSB interaction explored by Molecular Dynamics Simulation

(2018) Monisha Mohan et al.   JOURNAL OF MOLECULAR GRAPHICS & MODELLING

Escherichia coli AlkB interacts with single-stranded DNA binding protein SSB by an intrinsically disordered region of SSB

(2018) Richa Nigam et al.   MOLECULAR BIOLOGY REPORTS

Amazing Diversity in Biochemical Roles of Fe(II)/2-Oxoglutarate Oxygenases

(2018) Caitlyn Q Herr et al.   TRENDS IN BIOCHEMICAL SCIENCES

The AlkB Family of Fe (II)/Alpha-Ketoglutarate-Dependent Dioxygenases Modulates Embryogenesis through Epigenetic Regulation

(2018) Yuting Liu et al.   Current Stem Cell Research & Therapy

Fluorescence Probes for ALKBH2 Allow the Measurement of DNA Alkylation Repair and Drug Resistance Responses

(2018) David L. Wilson et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Human ALKBH3-induced m1A demethylation increases the CSF-1 mRNA stability in breast and ovarian cancer cells

(2018) Ho-Hyung Woo et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Active Site Breathing of Human Alkbh5 Revealed by Solution NMR and Accelerated Molecular Dynamics

(2018) Jeffrey A. Purslow et al.   BIOPHYSICAL JOURNAL

Transfer RNA demethylase ALKBH3 promotes cancer progression via induction of tRNA-derived small RNAs

(2018) Zhuojia Chen et al.   NUCLEIC ACIDS RESEARCH

Alkbh4 and Atrn Act Maternally to Regulate Zebrafish Epiboly

(2017) Qingrui Sun et al.   International Journal of Biological Sciences

ALKBH1 is an RNA dioxygenase responsible for cytoplasmic and mitochondrial tRNA modifications

(2017) Layla Kawarada et al.   NUCLEIC ACIDS RESEARCH

ALKBH5-dependent m6A demethylation controls splicing and stability of long 3′-UTR mRNAs in male germ cells

(2017) Chong Tang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Computational investigation of O2 diffusion through an intra-molecular tunnel in AlkB; influence of polarization on O2 transport

(2017) Hedieh Torabifard et al.   Chemical Science

ALKBH7 drives a tissue and sex-specific necrotic cell death response following alkylation-induced damage

(2017) Jennifer J Jordan et al.   Cell Death & Disease

ALKBH7 Variant Related to Prostate Cancer Exhibits Altered Substrate Binding

(2017) Alice R. Walker et al.   PLoS Computational Biology

AlkB homolog 3-mediated tRNA demethylation promotes protein synthesis in cancer cells

(2017) Yuko Ueda et al.   Scientific Reports

Roles of Aag, Alkbh2, and Alkbh3 in the Repair of Carboxymethylated and Ethylated Thymidine Lesions

(2016) Changjun You et al.   ACS Chemical Biology

ALKBH8 promotes bladder cancer growth and progression through regulating the expression of survivin

(2016) Ikumi Ohshio et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

ALKBH1-Mediated tRNA Demethylation Regulates Translation

(2016) Fange Liu et al.   CELL

Role of ALKBH1 in the Core Transcriptional Network of Embryonic Stem Cells

(2016) Rune Ougland et al.   CELLULAR PHYSIOLOGY AND BIOCHEMISTRY

RNA epigenetics — chemical messages for posttranscriptional gene regulation

(2016) Ian A Roundtree et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

ALKBHs-facilitated RNA modifications and de-modifications

(2016) Endalkachew A. Alemu et al.   DNA REPAIR

NSUN3 and ABH1 modify the wobble position of mt‐tRNAMetto expand codon recognition in mitochondrial translation

(2016) Sara Haag et al.   EMBO JOURNAL

Fluorescence Monitoring of the Oxidative Repair of DNA Alkylation Damage by ALKBH3, a Prostate Cancer Marker

(2016) Andrew A. Beharry et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

DNA methylation on N6-adenine in mammalian embryonic stem cells

(2016) Tao P. Wu et al.   NATURE

Hypoxia induces the breast cancer stem cell phenotype by HIF-dependent and ALKBH5-mediated m6A-demethylation of NANOG mRNA

(2016) Chuanzhao Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

m6A: Signaling for mRNA splicing

(2016) Samir Adhikari et al.   RNA Biology

N6-Methyladenosine: a conformational marker that regulates the substrate specificity of human demethylases FTO and ALKBH5

(2016) Shui Zou et al.   Scientific Reports

m6A RNA Methylation Is Regulated by MicroRNAs and Promotes Reprogramming to Pluripotency

(2015) Tong Chen et al.   Cell Stem Cell

RNAN6-methyladenosine methylation in post-transcriptional gene expression regulation

(2015) Yanan Yue et al.   GENES & DEVELOPMENT

The AlkB Family of Fe(II)/α-Ketoglutarate-dependent Dioxygenases: Repairing Nucleic Acid Alkylation Damage and Beyond

(2015) Bogdan I. Fedeles et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

DecreasedN6-Methyladenosine in Peripheral Blood RNA From Diabetic Patients Is Associated WithFTOExpression Rather ThanALKBH5

(2015) Fan Shen et al.   JOURNAL OF CLINICAL ENDOCRINOLOGY & METABOLISM

Clinical significance and therapeutic potential of prostate cancer antigen-1/ALKBH3 in human renal cell carcinoma

(2015) KIYOHIKO HOTTA et al.   ONCOLOGY REPORTS

Non-homologous functions of the AlkB homologs

(2015) Rune Ougland et al.   Journal of Molecular Cell Biology

The oxidative demethylase ALKBH3 marks hyperactive gene promoters in human cancer cells

(2015) Robert Liefke et al.   Genome Medicine

Fate by RNA methylation: m6A steers stem cell pluripotency

(2015) Boxuan Zhao et al.   GENOME BIOLOGY

Alkbh8 Regulates Selenocysteine-Protein Expression to Protect against Reactive Oxygen Species Damage

(2015) Lauren Endres et al.   PLoS One

Switching Demethylation Activities between AlkB Family RNA/DNA Demethylases through Exchange of Active-Site Residues

(2014) Chenxu Zhu et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

FTO-dependent demethylation of N6-methyladenosine regulates mRNA splicing and is required for adipogenesis

(2014) Xu Zhao et al.   CELL RESEARCH

FTO and Obesity: Mechanisms of Association

(2014) Xu Zhao et al.   Current Diabetes Reports

Crystal structure of the RNA demethylase ALKBH5 from zebrafish

(2014) Weizhong Chen et al.   FEBS LETTERS

The Atomic Resolution Structure of Human AlkB Homolog 7 (ALKBH7), a Key Protein for Programmed Necrosis and Fat Metabolism

(2014) Guoqiang Wang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Protein Dynamics Control the Progression and Efficiency of the Catalytic Reaction Cycle of theEscherichia coliDNA-Repair Enzyme AlkB

(2014) Burçe Ergel et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Crystal Structures of the Human RNA Demethylase Alkbh5 Reveal Basis for Substrate Recognition

(2014) Chong Feng et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Theory Uncovers an Unusual Mechanism of DNA Repair of a Lesioned Adenine by AlkB Enzymes

(2014) Binju Wang et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Obesity-associated variants within FTO form long-range functional connections with IRX3

(2014) Scott Smemo et al.   NATURE

Gene expression regulation mediated through reversible m6A RNA methylation

(2014) Ye Fu et al.   NATURE REVIEWS GENETICS

Structure of human RNA N6-methyladenine demethylase ALKBH5 provides insights into its mechanisms of nucleic acid recognition and demethylation

(2014) WeiShen Aik et al.   NUCLEIC ACIDS RESEARCH

Meclofenamic acid selectively inhibits FTO demethylation of m6A over ALKBH5

(2014) Yue Huang et al.   NUCLEIC ACIDS RESEARCH

Protozoan ALKBH8 Oxygenases Display both DNA Repair and tRNA Modification Activities

(2014) Daria Zdżalik et al.   PLoS One

ALKBH4 Depletion in Mice Leads to Spermatogenic Defects

(2014) Anja Nilsen et al.   PLoS One

A covalent protein–DNA 5′-product adduct is generated following AP lyase activity of human ALKBH1 (AlkB homologue 1)

(2013) Tina A. Müller et al.   BIOCHEMICAL JOURNAL

Human ALKBH7 is required for alkylation and oxidation-induced programmed necrosis

(2013) D. Fu et al.   GENES & DEVELOPMENT

Sprouts of RNA epigenetics

(2013) Guanqun Zheng et al.   RNA Biology

Deletion of mouse Alkbh7 leads to obesity

(2013) A. Solberg et al.   Journal of Molecular Cell Biology

DNA Repair by Reversal of DNA Damage

(2013) C. Yi et al.   Cold Spring Harbor Perspectives in Biology

ALKBH4-dependent demethylation of actin regulates actomyosin dynamics

(2013) Ming-Ming Li et al.   Nature Communications

FTO-mediated formation of N6-hydroxymethyladenosine and N6-formyladenosine in mammalian RNA

(2013) Ye Fu et al.   Nature Communications

Structure and Function of Noncanonical Nucleobases

(2012) Thomas Carell et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Changes in Protein Dynamics of the DNA Repair Dioxygenase AlkB upon Binding of Fe2+ and 2-Oxoglutarate

(2012) Boris Bleijlevens et al.   BIOCHEMISTRY

PCA-1/ALKBH3 Contributes to Pancreatic Cancer by Supporting Apoptotic Resistance and Angiogenesis

(2012) I. Yamato et al.   CANCER RESEARCH

ALKBH2, a novel AlkB homologue, contributes to human bladder cancer progression by regulating MUC1 expression

(2012) Tomomi Fujii et al.   CANCER SCIENCE

ALKBH3 Contributes to Survival and Angiogenesis of Human Urothelial Carcinoma Cells through NADPH Oxidase and Tweak/Fn14/VEGF Signals

(2012) K. Shimada et al.   CLINICAL CANCER RESEARCH

DNA repair is indispensable for survival after acute inflammation

(2012) Jennifer A. Calvo et al.   JOURNAL OF CLINICAL INVESTIGATION

ALKBH5 Is a Mammalian RNA Demethylase that Impacts RNA Metabolism and Mouse Fertility

(2012) Guanqun Zheng et al.   MOLECULAR CELL

Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq

(2012) Dan Dominissini et al.   NATURE

Duplex interrogation by a direct DNA repair protein in search of base damage

(2012) Chengqi Yi et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The DNA repair protein ALKBH2 mediates temozolomide resistance in human glioblastoma cells

(2012) Tor-Christian Aase Johannessen et al.   NEURO-ONCOLOGY

Alkbh1 and Tzfp repress a non-repeat piRNA cluster in pachytene spermatocytes

(2012) Line M. Nordstrand et al.   NUCLEIC ACIDS RESEARCH

Human ALKBH4 Interacts with Proteins Associated with Transcription

(2012) Linn G. Bjørnstad et al.   PLoS One

ALKBH1 is a Histone H2A Dioxygenase Involved in Neural Differentiation

(2012) Rune Ougland et al.   STEM CELLS

N6-methyl-adenosine (m6A) in RNA: An Old Modification with A Novel Epigenetic Function

(2012) Yamei Niu et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Down-regulation of ALKBH2 increases cisplatin sensitivity in H1299 lung cancer cells

(2011) Shuang-shuang Wu et al.   ACTA PHARMACOLOGICA SINICA

Spectroscopic and magnetic studies of wild-type and mutant forms of the Fe(II)- and 2-oxoglutarate-dependent decarboxylase ALKBH4

(2011) Linn G. Bjørnstad et al.   BIOCHEMICAL JOURNAL

The role of the fat mass and obesity associated gene (FTO) in breast cancer risk

(2011) Virginia Kaklamani et al.   BMC Medical Genetics

ALKBH3, a human AlkB homologue, contributes to cell survival in human non-small-cell lung cancer

(2011) M Tasaki et al.   BRITISH JOURNAL OF CANCER

Common genetic variants related to genomic integrity and risk of papillary thyroid cancer

(2011) Gila Neta et al.   CARCINOGENESIS

Analysis of differentially expressed genes in human rectal carcinoma using suppression subtractive hybridization

(2011) So-young Choi et al.   CLINICAL AND EXPERIMENTAL MEDICINE

Crystal Structure and RNA Binding Properties of the RNA Recognition Motif (RRM) and AlkB Domains in Human AlkB Homolog 8 (ABH8), an Enzyme Catalyzing tRNA Hypermodification

(2011) Chiara Pastore et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

DNA Unwinding by ASCC3 Helicase Is Coupled to ALKBH3-Dependent DNA Alkylation Repair and Cancer Cell Proliferation

(2011) Sebastian Dango et al.   MOLECULAR CELL

ALKBH8-mediated formation of a novel diastereomeric pair of wobble nucleosides in mammalian tRNA

(2011) Erwin van den Born et al.   Nature Communications

The AlkB Domain of Mammalian ABH8 Catalyzes Hydroxylation of 5-Methoxycarbonylmethyluridine at the Wobble Position of tRNA

(2010) Ye Fu et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Frequent down-regulation of hABH2 in gastric cancer and its involvement in growth of cancer cells

(2010) Wei Gao et al.   JOURNAL OF GASTROENTEROLOGY AND HEPATOLOGY

Mammalian ALKBH8 Possesses tRNA Methyltransferase Activity Required for the Biogenesis of Multiple Wobble Uridine Modifications Implicated in Translational Decoding

(2010) L. Songe-Moller et al.   MOLECULAR AND CELLULAR BIOLOGY

Human AlkB Homolog ABH8 Is a tRNA Methyltransferase Required for Wobble Uridine Modification and DNA Damage Survival

(2010) D. Fu et al.   MOLECULAR AND CELLULAR BIOLOGY

Mechanistic insight into the recognition of single-stranded and double-stranded DNA substrates by ABH2 and ABH3

(2010) Baoen Chen et al.   Molecular BioSystems

Crystal structure of the FTO protein reveals basis for its substrate specificity

(2010) Zhifu Han et al.   NATURE

Grand Challenge Commentary: RNA epigenetics?

(2010) Chuan He   Nature Chemical Biology

Divergent β-hairpins determine double-strand versus single-strand substrate recognition of human AlkB-homologues 2 and 3

(2010) Vivi Talstad Monsen et al.   NUCLEIC ACIDS RESEARCH

Structure determination of DNA methylation lesions N 1 -meA and N 3 -meC in duplex DNA using a cross-linked protein–DNA system

(2010) Lianghua Lu et al.   NUCLEIC ACIDS RESEARCH

Mice Lacking Alkbh1 Display Sex-Ratio Distortion and Unilateral Eye Defects

(2010) Line M. Nordstrand et al.   PLoS One

A Non-Heme Iron-Mediated Chemical Demethylation in DNA and RNA

(2009) Chengqi Yi et al.   ACCOUNTS OF CHEMICAL RESEARCH

A Novel Human AlkB Homologue, ALKBH8, Contributes to Human Bladder Cancer Progression

(2009) K. Shimada et al.   CANCER RESEARCH

Human AlkB homologue 1 (ABH1) exhibits DNA lyase activity at abasic sites

(2009) Tina A. Müller et al.   DNA REPAIR

Pediatric brain tumors: mutations of two dioxygenases (hABH2 and hABH3) that directly repair alkylation damage

(2009) Valentina Cetica et al.   JOURNAL OF NEURO-ONCOLOGY

Enzymological and structural studies of the mechanism of promiscuous substrate recognition by the oxidative DNA repair enzyme AlkB

(2009) B. Yu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

AlkB demethylases flip out in different ways

(2008) Ottar Sundheim et al.   DNA REPAIR

Dynamic states of the DNA repair enzyme AlkB regulate product release

(2008) Boris Bleijlevens et al.   EMBO REPORTS

Human AlkB Homolog 1 Is a Mitochondrial Protein That Demethylates 3-Methylcytosine in DNA and RNA

(2008) Marianne Pedersen Westbye et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Crystal structures of DNA/RNA repair enzymes AlkB and ABH2 bound to dsDNA

(2008) Cai-Guang Yang et al.   NATURE