Evidence map›Paper›PMID 39680033›Full record

ArticleACS chemical biology2025

The Impact of Sugar Conformation on the Single-Stranded DNA Selectivity of APOBEC3A and APOBEC3B Enzymes.

Mackenzie K Wyllie, Clare K Morris, Nicholas H Moeller, Henry A M Schares, Ramkumar Moorthy, Christopher A Belica, Michael J Grillo, Özlem Demir, Alex M Ayoub, Michael A Carpenter and 4 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in ACS chemical biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

  1. Article
  2. Article
  3. HAMMER: Hairpin-based APOBEC3A-mediated mRNA editing reporter.bioRxiv : the preprint server for biology · 2026
    Article
  4. 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

14 authors.

Mackenzie K WyllieDepartment of Medicinal Chemistry, University of Minnesota, Minneapolis 55455, United States.
Clare K MorrisDepartment of Chemistry and Biochemistry, University of California, San Diego 92103, United States.
Nicholas H MoellerDepartment of Biochemistry, Molecular Biology, and Biophysics, University of Minnesota, Minneapolis 55455, United States.
Henry A M ScharesDepartment of Medicinal Chemistry, University of Minnesota, Minneapolis 55455, United States.
Ramkumar MoorthyDepartment of Medicinal Chemistry, University of Minnesota, Minneapolis 55455, United States.
Christopher A BelicaDepartment of Biochemistry, Molecular Biology, and Biophysics, University of Minnesota, Minneapolis 55455, United States.
Michael J GrilloDepartment of Medicinal Chemistry, University of Minnesota, Minneapolis 55455, United States.
Özlem DemirDepartment of Chemistry and Biochemistry, University of California, San Diego 92103, United States.
Alex M AyoubDepartment of Medicinal Chemistry, University of Minnesota, Minneapolis 55455, United States.
Michael A CarpenterDepartment of Biochemistry and Structural Biology, University of Texas Health San Antonio, San Antonio, Texas 78249, United States.
Hideki AiharaDepartment of Biochemistry, Molecular Biology, and Biophysics, University of Minnesota, Minneapolis 55455, United States.ORCID 0000-0001-7508-6230
Reuben S HarrisDepartment of Biochemistry and Structural Biology, University of Texas Health San Antonio, San Antonio, Texas 78249, United States.
Rommie E AmaroDepartment of Molecular Biology, University of California, San Diego 92103, United States.ORCID 0000-0002-9275-9553
Daniel A HarkiDepartment of Medicinal Chemistry, University of Minnesota, Minneapolis 55455, United States.ORCID 0000-0001-5950-931X

Funding

Women's CancerP30CA077598 · NCI · UNIVERSITY OF MINNESOTA TWIN CITIES · PI Timothy C. Hallstrom · 1998 to 2026
$100.4M
PROJECT 3 – BIOLOGY OF DNA DEAMINASES IN CANCERP01CA234228 · NCI · UNIVERSITY OF TEXAS HLTH SCIENCE CENTER · PI Michael Allen Carpenter · 2019 to 2026
$14.5M
Contemporary Approaches to Cancer Cell Signaling and CommunicationT32CA009523 · NCI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI DONOGHUE, DANIEL J, YANG, JING · 1985 to 2025
$12.1M
NCI NIH HHS P01 CA234228NCI NIH HHS P30 CA077598NCI NIH HHS T32 CA009523
6 · The paper itself

Abstract

The APOBEC3 family of polynucleotide cytidine deaminases has diverse roles as viral restriction factors and oncogenic mutators. These enzymes convert cytidine to uridine in single-stranded (ss)DNA, inducing genomic mutations that promote drug resistance and tumor heterogeneity. Of the seven human APOBEC3 members, APOBEC3A (A3A) and APOBEC3B (A3B) are most implicated in driving pro-tumorigenic mutations. How these enzymes engage and selectively deaminate ssDNA over RNA is not well understood. We previously conducted molecular dynamics (MD) simulations that support the role of sugar conformation as a key molecular determinant in nucleic acid recognition by A3B. We hypothesize that A3A and A3B selectively deaminate substrates in the 2'-

Indexed as

Cytidine DeaminaseDNA, Single-StrandedMinor Histocompatibility AntigensCarbohydrate ConformationHumansMolecular Dynamics SimulationProteinsSubstrate SpecificityAPOBEC3A protein, humanAPOBEC3B protein, humanCytidine DeaminaseDNA, Single-StrandedMinor Histocompatibility AntigensProteins

Identifiers

PMID39680033
PMCPMC13331677

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.