Evidence map›Paper›PMID 30104358›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2018

Chromatin structure and its chemical modifications regulate the ubiquitin ligase substrate selectivity of UHRF1.

Robert M Vaughan, Bradley M Dickson, Matthew F Whelihan, Andrea L Johnstone, Evan M Cornett, Marcus A Cheek, Christine A Ausherman, Martis W Cowles, Zu-Wen Sun, Scott B Rothbart

Open access · hybridAbstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.

0numbers the graph read from it
0cells of the map it votes in
32citing papers in PubMed
2.4field-weighted citation impact, top 10% 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

32 citing papers in PubMed, 56 citations in OpenAlex.

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  11. Mechanisms of chromatin-based epigenetic inheritance.Science China. Life sciences · 2022
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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

10 authors at 2 institutions in 1 country.

Robert M VaughanCenter for Epigenetics, Van Andel Research Institute, Grand Rapids, MI 49503.
Bradley M DicksonCenter for Epigenetics, Van Andel Research Institute, Grand Rapids, MI 49503.
Matthew F WhelihanEpiCypher, Inc., Research Triangle Park, NC 27713.
Andrea L JohnstoneEpiCypher, Inc., Research Triangle Park, NC 27713.
Evan M CornettCenter for Epigenetics, Van Andel Research Institute, Grand Rapids, MI 49503.
Marcus A CheekEpiCypher, Inc., Research Triangle Park, NC 27713.
Christine A AushermanCenter for Epigenetics, Van Andel Research Institute, Grand Rapids, MI 49503.
Martis W CowlesEpiCypher, Inc., Research Triangle Park, NC 27713.
Zu-Wen SunEpiCypher, Inc., Research Triangle Park, NC 27713.
Scott B RothbartCenter for Epigenetics, Van Andel Research Institute, Grand Rapids, MI 49503; Scott.Rothbart@vai.org.ORCID 0000-0003-1631-5392
EpiCypher (United States) · USVan Andel Institute · US

Funding

Molecular mechanisms of chromatin and epigenetic regulationR35GM124736 · NIGMS · VAN ANDEL RESEARCH INSTITUTE · PI ROTHBART, SCOTT · 2017 to 2021
$2.4M
Accelerated discovery of methylation targeted therapeutic developmentR44CA212733 · NCI · EPICYPHER, INC. · PI SUN, ZU-WEN · 2018 to 2019
$2.1M
Accelerated discovery of methylation targeted therapeutic developmentR43CA212733 · NCI · EPICYPHER, INC. · PI SUN, ZU-WEN · 2016 to 2016
$224k
NCI NIH HHS R43 CA212733NCI NIH HHS R44 CA212733NIGMS NIH HHS R35 GM124736
6 · The paper itself

Abstract

Mitotic inheritance of DNA methylation patterns is facilitated by UHRF1, a DNA- and histone-binding E3 ubiquitin ligase that helps recruit the maintenance DNA methyltransferase DNMT1 to replicating chromatin. The DNA methylation maintenance function of UHRF1 is dependent on its ability to bind chromatin, where it facilitates monoubiquitination of histone H3 at lysines 18 and 23, a docking site for DNMT1. Because of technical limitations, this model of UHRF1-dependent DNA methylation inheritance has been constructed largely based on genetics and biochemical observations querying methylated DNA oligonucleotides, synthetic histone peptides, and heterogeneous chromatin extracted from cells. Here, we construct semisynthetic mononucleosomes harboring defined histone and DNA modifications and perform rigorous analysis of UHRF1 binding and enzymatic activity with these reagents. We show that multivalent engagement of nucleosomal linker DNA and dimethylated lysine 9 on histone H3 directs UHRF1 ubiquitin ligase activity toward histone substrates. Notably, we reveal a molecular switch, stimulated by recognition of hemimethylated DNA, which redirects UHRF1 ubiquitin ligase activity away from histones in favor of robust autoubiquitination. Our studies support a noncompetitive model for UHRF1 and DNMT1 chromatin recruitment to replicating chromatin and define a role for hemimethylated linker DNA as a regulator of UHRF1 ubiquitin ligase substrate selectivity.

Indexed as

CCAAT-Enhancer-Binding ProteinsChromatinDNA MethylationHistonesModels, BiologicalUbiquitinationDNA (Cytosine-5-)-Methyltransferase 1HumansSubstrate SpecificityUbiquitin-Protein LigasesCCAAT-Enhancer-Binding ProteinsChromatinDNA (Cytosine-5-)-Methyltransferase 1DNMT1 protein, humanHistonesUbiquitin-Protein LigasesUHRF1 protein, humanDNA methylationE3 ligaseepigeneticshistone posttranslational modificationsnucleosomes

Identifiers

PMID30104358
PMCPMC6126761
OpenAlexW2887865817

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.