Evidence map›Paper›PMID 40371780›Full record

ReviewProtein science : a publication of the Protein Society2025

Chemically induced partial unfolding of the multifunctional apurinic/apyrimidinic endonuclease 1.

Ratan Rai, Olabode I Dawodu, Jingwei Meng, Steven M Johnson, Jonah Z Vilseck, Mark R Kelley, Joshua J Ziarek, Millie M Georgiadis

Erratum issuedAbstract readReview
In one paragraph

Review in Protein science : a publication of the Protein Society, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing 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

9 citing papers in PubMed.

  1. Review
  2. Article
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  9. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

8 authors.

Ratan RaiDepartment of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana, USA.
Olabode I DawoduDepartment of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana, USA.
Jingwei MengDepartment of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana, USA.
Steven M JohnsonDepartment of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana, USA.
Jonah Z VilseckDepartment of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana, USA.
Mark R KelleyDepartment of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana, USA.
Joshua J ZiarekDepartment of Pharmacology, Northwestern University Feinberg School of Medicine, Chicago, Illinois, USA.
Millie M GeorgiadisDepartment of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana, USA.ORCID 0000-0003-2976-4576

Funding

Tumor Microenvironment and Metastasis ProgramP30CA082709 · NCI · INDIANA UNIV-PURDUE UNIV AT INDIANAPOLIS · PI David W Clapp · 1999 to 2026
$59.3M
Novel Role of Ref-1 in Pancreatic Cancer Etiology and ProgressionR01CA167291 · NCI · INDIANA UNIVERSITY INDIANAPOLIS · PI FISHEL, MELISSA L., KELLEY, MARK R. · 2013 to 2022
$5.2M
(PQ12) Enhancement of DNA repair in neurons via a targeted APE1 small molecule modifier to decrease and reverse chemotherapy-induced peripheral neuropathy (CIPN)R01CA231267 · NCI · INDIANA UNIVERSITY INDIANAPOLIS · PI FEHRENBACHER, JILL C, KELLEY, MARK R. · 2018 to 2022
$2.3M
Investigation of novel signaling protein in 3D and in vivo PDAC models using second generation Ref-1 inhibitorsR01CA254110 · NCI · INDIANA UNIVERSITY INDIANAPOLIS · PI FISHEL, MELISSA L., HAN, BUMSOO · 2021 to 2025
$2.1M
The role of dynamics in GPCR and arrestin allosteryR35GM143054 · NIGMS · TRUSTEES OF INDIANA UNIVERSITY · PI ZIAREK, JOSHUA JAMES · 2021 to 2025
$2.1M
Metabolic flux analysis and PDX models to understand therapeutic vulnerabilities following inhibition of Ref-1 redox signaling in pancreatic cancerR01CA282478 · NCI · INDIANA UNIVERSITY INDIANAPOLIS · PI Melissa L. Fishel, Mark R. Kelley · 2023 to 2026
$2.1M
Tackling Multifaceted Drug Design Problems with Lambda Dynamics Based TechnologiesR35GM146888 · NIGMS · INDIANA UNIVERSITY INDIANAPOLIS · PI JONAH VILSECK · 2022 to 2026
$1.9M
NCI NIH HHS P30 CA082709NCI NIH HHS R01 CA167291NCI NIH HHS R01 CA231267NCI NIH HHS R01 CA254110NCI NIH HHS R01 CA282478NIGMS NIH HHS R35 GM143054NIGMS NIH HHS R35 GM146888NIH HHS P30CA082709NIH HHS R01CA167291NIH HHS R01CA231267NIH HHS R01CA254110NIH HHS R35GM143054
6 · The paper itself

Abstract

Apurinic/apyrimidinic endonuclease I (APE1) acts as both an endonuclease and a redox factor to ensure cell survival. The two activities require different conformations of APE1. As an endonuclease, APE1 is fully folded. As a redox factor, APE1 must be partially unfolded to expose the buried residue Cys65, which reduces transcription factors including AP-1, NF-κB, and HIF-1α and thereby enables them to bind DNA. To determine a molecular basis for partial unfolding associated with APE1's redox activity, we characterized specific interactions of a known redox inhibitor APX3330 with APE1 through waterLOGSY and

Indexed as

DNA-(Apurinic or Apyrimidinic Site) LyasePropionatesProtein UnfoldingAcetonitrilesBenzoquinonesHumansModels, MolecularNuclear Magnetic Resonance, BiomolecularAcetonitrilesAPEX1 protein, humanBenzoquinonesDNA-(Apurinic or Apyrimidinic Site) LyaseE 3330PropionatesAPE1APX3330HSQC NMRpartial unfolding

Identifiers

PMID40371780
PMCPMC12079476

What OpenQuestion holds

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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.