Evidence map›Paper›PMID 25240767›Full record

ArticleJournal of molecular biology2014

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

Samuel Hong, Hideharu Hashimoto, Yoke Wah Kow, Xing Zhang, Xiaodong Cheng

Abstract read
In one paragraph

Article in Journal of molecular biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing papers in PubMed
–field-weighted citation impact
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

12 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
  4. Noncatalytic Domains in DNA Glycosylases.International journal of molecular sciences · 2022
    Review
  5. Article
  6. Article
  7. Active DNA Demethylation in Plants.International journal of molecular sciences · 2019
    Review
  8. Review
  9. Review
  10. Article
  11. Review
  12. Review
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

5 authors.

Samuel HongDepartment of Biochemistry, Emory University School of Medicine, 1510 Clifton Road, Atlanta, GA 30322, USA; Molecular and Systems Pharmacology Graduate Program, Emory University School of Medicine, 1510 Clifton Road, Atlanta, GA 30322, USA. Electronic address: shong27@emory.edu.
Hideharu HashimotoDepartment of Biochemistry, Emory University School of Medicine, 1510 Clifton Road, Atlanta, GA 30322, USA. Electronic address: hhashi3@emory.edu.
Yoke Wah KowDepartment of Radiation Oncology, Emory University School of Medicine, 1510 Clifton Road, Atlanta, GA 30322, USA. Electronic address: ykow@emory.edu.
Xing ZhangDepartment of Biochemistry, Emory University School of Medicine, 1510 Clifton Road, Atlanta, GA 30322, USA. Electronic address: xzhan02@emory.edu.
Xiaodong ChengDepartment of Biochemistry, Emory University School of Medicine, 1510 Clifton Road, Atlanta, GA 30322, USA. Electronic address: xcheng@emory.edu.

Funding

THREE-DIMENSIONAL STRUCTURE OF HHAI METHYLASER01GM049245 · NIGMS · UNIVERSITY OF TX MD ANDERSON CAN CTR · PI CHENG, XIAODONG · 1993 to 2017
$6.6M
NIGMS NIH HHS GM049245-21NIGMS NIH HHS R01 GM049245
6 · The paper itself

Abstract

Arabidopsis thaliana repressor of silencing 1 (ROS1) is a multi-domain bifunctional DNA glycosylase/lyase, which excises 5-methylcytosine (5mC) and 5-hydroxymethylcytosine (5hmC) as well as thymine and 5-hydroxymethyluracil (i.e., the deamination products of 5mC and 5hmC) when paired with a guanine, leaving an apyrimidinic (AP) site that is subsequently incised by the lyase activity. ROS1 is slow in base excision and fast in AP lyase activity, indicating that the recognition of pyrimidine modifications might be a rate-limiting step. In the C-terminal half, the enzyme harbors a helix-hairpin-helix DNA glycosylase domain followed by a unique C-terminal domain. We show that the isolated glycosylase domain is inactive for base excision but retains partial AP lyase activity. Addition of the C-terminal domain restores the base excision activity and increases the AP lyase activity as well. Furthermore, the two domains remain tightly associated and can be co-purified by chromatography. We suggest that the C-terminal domain of ROS1 is indispensable for the 5mC DNA glycosylase activity of ROS1.

Indexed as

5-MethylcytosineAnimalsArabidopsisArabidopsis ProteinsDNA-(Apurinic or Apyrimidinic Site) LyaseDNA GlycosylasesMiceMutationNuclear ProteinsProtein Structure, Tertiary5-Methylcytosine5-methylcytosine-DNA glycosylaseArabidopsis ProteinsDNA-(Apurinic or Apyrimidinic Site) LyaseDNA GlycosylasesmutY adenine glycosylaseNuclear ProteinsROS1 protein, Arabidopsis5-methylcytosineDNA 5mC glycosylaseDNA demethylationepigenetic regulationrepressor of silencing

Identifiers

PMID25240767
PMCPMC4253907

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

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.