Evidence map›Paper›PMID 25564762›Full record

ArticleNature communications2015

A lysine-rich motif in the phosphatidylserine receptor PSR-1 mediates recognition and removal of apoptotic cells.

Hengwen Yang, Yu-Zen Chen, Yi Zhang, Xiaohui Wang, Xiang Zhao, James I Godfroy, Qian Liang, Man Zhang, Tianying Zhang, Quan Yuan and 5 more

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.

0numbers the graph read from it
0cells of the map it votes in
24citing papers in PubMed
3.5field-weighted citation impact, top 7% 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

24 citing papers in PubMed, 45 citations in OpenAlex.

  1. Article
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  6. Review
  7. Worms, Fat, and Death:Metabolites · 2021
    Review
  8. Article
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  10. Die in pieces: How Drosophila sheds light on neurite degeneration and clearance.Journal of genetics and genomics = Yi chuan xue bao · 2019
    Review
  11. Article
  12. Review
  13. Lipopolysaccharide and Curcumin Co-Stimulation Potentiates Olfactory Ensheathing Cell Phagocytosis Via Enhancing Their Activation.Neurotherapeutics : the journal of the American Society for Experimental NeuroTherapeutics · 2017
    Article
  14. Programmed cell clearance: From nematodes to humans.Biochemical and biophysical research communications · 2017
    Review
  15. Article
  16. Article
  17. Drugging Membrane Protein Interactions.Annual review of biomedical engineering · 2016
    Review
  18. Review
  19. Review
  20. Article
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

15 authors at 4 institutions in 2 countries.

Hengwen YangDepartment of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado 80309, USA.
Yu-Zen ChenDepartment of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado 80309, USA.
Yi ZhangSchool of Life Sciences, Tsinghua University, Beijing 100084, China.
Xiaohui WangDepartment of Chemistry &Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80309, USA.
Xiang ZhaoSchool of Life Sciences, Tsinghua University, Beijing 100084, China.
James I GodfroyDepartment of Chemistry &Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80309, USA.
Qian LiangSchool of Life Sciences, Tsinghua University, Beijing 100084, China.
Man ZhangSchool of Life Sciences, Tsinghua University, Beijing 100084, China.
Tianying ZhangNational Institute of Diagnostics and Vaccine Development in Infectious Diseases, Xiamen University, Xiamen 361102, China.
Quan YuanNational Institute of Diagnostics and Vaccine Development in Infectious Diseases, Xiamen University, Xiamen 361102, China.
Mary Ann RoyalDepartment of Molecular Biology and Biochemistry, Rutgers, The State University of New Jersey, Piscataway, New Jersey 08854, USA.
Monica DriscollDepartment of Molecular Biology and Biochemistry, Rutgers, The State University of New Jersey, Piscataway, New Jersey 08854, USA.
Ning-Shao XiaNational Institute of Diagnostics and Vaccine Development in Infectious Diseases, Xiamen University, Xiamen 361102, China.
Hang Yin1] Department of Chemistry &Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80309, USA [2] Center of Basic Molecular Science and Department of Chemistry, Tsinghua University, Beijing 100082, China.
Ding Xue1] Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado 80309, USA [2] School of Life Sciences, Tsinghua University, Beijing 100084, China.
University of Colorado Boulder · USTsinghua University · CNXiamen University · CNRutgers, The State University of New Jersey · US

Funding

TARGETS OF THE CELL DEATH PROTEASESR01GM059083 · NIGMS · UNIVERSITY OF COLORADO AT BOULDER · PI XUE, DING · 1999 to 2012
$3.7M
Chromatin Degradation During ApoptosisR01GM079097 · NIGMS · UNIVERSITY OF COLORADO · PI XUE, DING · 2007 to 2015
$2.3M
Exogenous Chemical Probes of TLR-Mediated NeuroinflammationR01GM101279 · NIGMS · UNIVERSITY OF COLORADO · PI YIN, HANG HUBERT · 2013 to 2017
$1.4M
Dissecting Cell Signaling Mediated by Protein-Protein Interactions in MembranesR01GM103843 · NIGMS · UNIVERSITY OF COLORADO · PI YIN, HANG HUBERT · 2013 to 2016
$1.3M
Regulation of Cell Death ActivationR01GM088241 · NIGMS · UNIVERSITY OF COLORADO · PI XUE, DING · 2010 to 2013
$1.1M
NIGMS NIH HHS GM079097NIGMS NIH HHS NIH R01 GM101279NIGMS NIH HHS NIH R01 GM103843NIGMS NIH HHS R01 GM059083NIGMS NIH HHS R01 GM079097NIGMS NIH HHS R01 GM088241NIGMS NIH HHS R01 GM101279NIGMS NIH HHS R01 GM103843
6 · The paper itself

Abstract

The conserved phosphatidylserine receptor (PSR) was first identified as a receptor for phosphatidylserine, an 'eat-me' signal exposed by apoptotic cells. However, several studies suggest that PSR may also act as an arginine demethylase, a lysyl hydroxylase, or an RNA-binding protein through its N-terminal JmjC domain. How PSR might execute drastically different biochemical activities, and whether they are physiologically significant, remain unclear. Here we report that a lysine-rich motif in the extracellular domain of PSR-1, the Caenorhabditis elegans PSR, mediates specific phosphatidylserine binding in vitro and clearance of apoptotic cells in vivo. This motif also mediates phosphatidylserine-induced oligomerization of PSR-1, suggesting a mechanism by which PSR-1 activates phagocytosis. Mutations in the phosphatidylserine-binding motif, but not in its Fe(II) binding site critical for the JmjC activity, abolish PSR-1 phagocytic function. Moreover, PSR-1 enriches and clusters around apoptotic cells during apoptosis. These results establish that PSR-1 is a conserved, phosphatidylserine-recognizing phagocyte receptor.

Indexed as

Models, MolecularAmino Acid MotifsAmino Acid SequenceAnimalsAnimals, Genetically ModifiedApoptosisBase SequenceBlotting, WesternCaenorhabditis elegansCaenorhabditis elegans ProteinsCloning, MolecularDNA PrimersEnzyme-Linked Immunosorbent AssayFluorescenceGerm CellsGreen Fluorescent ProteinsCaenorhabditis elegans ProteinsDNA PrimersGreen Fluorescent ProteinsPsr-1 protein, C elegansReceptors, Cell Surface

Identifiers

PMID25564762
PMCPMC4306451
OpenAlexW2024877601

What OpenQuestion holds

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Registered trials

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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.