Evidence map›Paper›PMID 38787958›Full record

ArticleScience advances2024

An interaction network in the polymerase active site is a prerequisite for Watson-Crick base pairing in Pol γ.

Joon Park, Geoffrey K Herrmann, Arkanil Roy, Christie K Shumate, G Andrés Cisneros, Y Whitney Yin

Abstract read
In one paragraph

Article in Science advances, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing 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

7 citing papers in PubMed.

  1. Article
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  7. 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

6 authors.

Joon ParkDepartment of Biochemistry and Molecular Biology, University of Texas Medical Branch, Galveston, TX 77555, USA.ORCID 0000-0002-3983-6433
Geoffrey K HerrmannDepartment of Biochemistry and Molecular Biology, University of Texas Medical Branch, Galveston, TX 77555, USA.ORCID 0000-0002-0581-616X
Arkanil RoyDepartment of Chemistry and Biochemistry, University of Texas at Dallas, Richardson, TX 75080, USA.
Christie K ShumateDepartment of Pharmacology and Toxicology, University of Texas Medical Branch, Galveston, TX 77555, USA.
G Andrés CisnerosDepartment of Chemistry and Biochemistry, University of Texas at Dallas, Richardson, TX 75080, USA.ORCID 0000-0001-6629-3430
Y Whitney YinDepartment of Biochemistry and Molecular Biology, University of Texas Medical Branch, Galveston, TX 77555, USA.ORCID 0000-0001-7063-9385

Funding

The Stanford-SLAC CryoEM Center supplementU24GM129541 · NIGMS · STANFORD UNIVERSITY · PI CHIU, WAH, HEDMAN, BRITT · 2018 to 2023
$54.8M
Theory and Simulation of DNA Repair Enzymes; Mechanism, Structure and FunctionR01GM108583 · NIGMS · WAYNE STATE UNIVERSITY · PI CISNEROS, GERARDO ANDRES · 2014 to 2022
$2.9M
Structural Basis for Antiviral Drug Mitochondrial ToxicityR01AI134611 · NIAID · UNIVERSITY OF TEXAS MED BR GALVESTON · PI YIN, YUHUI · 2018 to 2022
$2.0M
Mitochondrial translesion DNA synthesisR01GM145925 · NIGMS · UNIVERSITY OF TEXAS MED BR GALVESTON · PI Yuhui Whitney Yin · 2023 to 2026
$1.4M
NIAID NIH HHS R01 AI134611NIGMS NIH HHS R01 GM108583NIGMS NIH HHS R01 GM145925NIGMS NIH HHS U24 GM129541
6 · The paper itself

Abstract

The replication accuracy of DNA polymerase gamma (Pol γ) is essential for mitochondrial genome integrity. Mutation of human Pol γ arginine-853 has been linked to neurological diseases. Although not a catalytic residue, Pol γ arginine-853 mutants are void of polymerase activity. To identify the structural basis for the disease, we determined a crystal structure of the Pol γ mutant ternary complex with correct incoming nucleotide 2'-deoxycytidine 5'-triphosphate (dCTP). Opposite to the wild type that undergoes open-to-closed conformational changes when bound to a correct nucleotide that is essential for forming a catalytically competent active site, the mutant complex failed to undergo the conformational change, and the dCTP did not base pair with its Watson-Crick complementary templating residue. Our studies revealed that arginine-853 coordinates an interaction network that aligns the 3'-end of primer and dCTP with the catalytic residues. Disruption of the network precludes the formation of Watson-Crick base pairing and closing of the active site, resulting in an inactive polymerase.

Indexed as

Base PairingCatalytic DomainDNA Polymerase gammaCrystallography, X-RayDeoxycytosine NucleotidesHumansModels, MolecularMutationProtein Binding2'-deoxycytidine 5'-triphosphateDeoxycytosine NucleotidesDNA Polymerase gamma

Identifiers

PMID38787958
PMCPMC11122685

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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.