Evidence map›Paper›PMID 26774490›Full record

ArticleCell reports2016

Tet3 Reads 5-Carboxylcytosine through Its CXXC Domain and Is a Potential Guardian against Neurodegeneration.

Seung-Gi Jin, Zhi-Min Zhang, Thomas L Dunwell, Matthew R Harter, Xiwei Wu, Jennifer Johnson, Zheng Li, Jiancheng Liu, Piroska E Szabó, Qiang Lu and 3 more

Open access · goldAbstract read
In one paragraph

Article in Cell reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 73 papers.

0numbers the graph read from it
0cells of the map it votes in
73citing papers in PubMed
11.1field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

73 citing papers in PubMed, 130 citations in OpenAlex.

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  20. Mechanisms that regulate the activities of TET proteins.Cellular and molecular life sciences : CMLS · 2022
    Review

13 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

13 authors at 5 institutions in 2 countries.

Seung-Gi JinCenter for Epigenetics, Van Andel Research Institute, Grand Rapids, MI 49503, USA; Department of Cancer Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA.
Zhi-Min ZhangDepartment of Biochemistry, University of California, Riverside, Riverside, CA 92521, USA.
Thomas L DunwellDepartment of Cancer Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA.
Matthew R HarterDepartment of Biochemistry, University of California, Riverside, Riverside, CA 92521, USA.
Xiwei WuDepartment of Molecular and Cellular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA.
Jennifer JohnsonCenter for Epigenetics, Van Andel Research Institute, Grand Rapids, MI 49503, USA.
Zheng LiThe State Key Laboratory of Molecular Biology, Institute of Biochemistry and Cell Biology, Chinese Academy of Sciences, Shanghai 200031, China.
Jiancheng LiuDepartment of Neurosciences, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA.
Piroska E SzabóCenter for Epigenetics, Van Andel Research Institute, Grand Rapids, MI 49503, USA; Department of Molecular and Cellular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA.
Qiang LuDepartment of Neurosciences, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA.
Guo-Liang XuThe State Key Laboratory of Molecular Biology, Institute of Biochemistry and Cell Biology, Chinese Academy of Sciences, Shanghai 200031, China.
Jikui SongDepartment of Biochemistry, University of California, Riverside, Riverside, CA 92521, USA. Electronic address: jikui.song@ucr.edu.
Gerd P PfeiferCenter for Epigenetics, Van Andel Research Institute, Grand Rapids, MI 49503, USA; Department of Cancer Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA. Electronic address: gerd.pfeifer@vai.org.
Beckman Research InstituteUniversity of California, Riverside · USCenter for Excellence in Molecular Cell Science · CNCity of Hope · USVan Andel Institute · US

Funding

Mechanisms of Genomic ImprintingR01GM064378 · NIGMS · VAN ANDEL RESEARCH INSTITUTE · PI SZABÓ, PIROSKA EDIT · 2002 to 2015
$4.3M
Epigenomic Modifications in Mammalian NeurogenesisR01MH094599 · NIMH · BECKMAN RESEARCH INSTITUTE/CITY OF HOPE · PI LU, QIANG, PFEIFER, GERD P · 2011 to 2015
$2.1M
Molecular Genetic Analysis of Mammalian Neuronal differentiationR01NS075393 · NINDS · BECKMAN RESEARCH INSTITUTE/CITY OF HOPE · PI LU, QIANG · 2011 to 2015
$1.8M
5-hydroxymethylcytosine in human cancerR01CA160965 · NCI · VAN ANDEL RESEARCH INSTITUTE · PI PFEIFER, GERD P · 2012 to 2017
$1.8M
NCI NIH HHS CA160965NCI NIH HHS R01 CA160965NIGMS NIH HHS GM064378NIGMS NIH HHS R01 GM064378NIMH NIH HHS MH094599NIMH NIH HHS R01 MH094599NINDS NIH HHS NS075393NINDS NIH HHS R01 NS075393
6 · The paper itself

Abstract

We report that the mammalian 5-methylcytosine (5mC) oxidase Tet3 exists as three major isoforms and characterized the full-length isoform containing an N-terminal CXXC domain (Tet3FL). This CXXC domain binds to unmethylated CpGs, but, unexpectedly, its highest affinity is toward 5-carboxylcytosine (5caC). We determined the crystal structure of the CXXC domain-5caC-DNA complex, revealing the structural basis of the binding specificity of this domain as a reader of CcaCG sequences. Mapping of Tet3FL in neuronal cells shows that Tet3FL is localized precisely at the transcription start sites (TSSs) of genes involved in lysosome function, mRNA processing, and key genes of the base excision repair pathway. Therefore, Tet3FL may function as a regulator of 5caC removal by base excision repair. Active removal of accumulating 5mC from the TSSs of genes coding for lysosomal proteins by Tet3FL in postmitotic neurons of the brain may be important for preventing neurodegenerative diseases.

Indexed as

Amino Acid MotifsAmino Acid SequenceAnimalsBrainCell LineCrystallography, X-RayCytosineDioxygenasesDNA-Binding ProteinsDNA MethylationDNA RepairFemaleHEK293 CellsHistonesHumansLysosomes5-carboxylcytosineCytosineDioxygenasesDNA-Binding ProteinsHistonesProtein IsoformsProto-Oncogene ProteinsTet3 protein, mouse

Identifiers

PMID26774490
PMCPMC4731272
OpenAlexW2225733508

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.