Evidence map›Paper›PMID 26056153›Full record

ArticleThe EMBO journal2015

Structural basis for processivity and antiviral drug toxicity in human mitochondrial DNA replicase.

Michal R Szymanski, Vladmir B Kuznetsov, Christie Shumate, Qingchao Meng, Young-Sam Lee, Gayatri Patel, Smita Patel, Y Whitney Yin

Open access · bronzeAbstract read
In one paragraph

Article in The EMBO journal, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.

0numbers the graph read from it
0cells of the map it votes in
49citing papers in PubMed
2.7field-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

49 citing papers in PubMed, 65 citations in OpenAlex.

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  18. Structural basis for DNA proofreading.Nature communications · 2023
    Article
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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

8 authors at 2 institutions in 1 country.

Michal R SzymanskiDepartment of Pharmacology and Toxicology, University of Texas Medical Branch, Galveston, TX, USA Sealy Center for Structural Biology, University of Texas Medical Branch, Galveston, TX, USA.
Vladmir B KuznetsovDepartment of Pharmacology and Toxicology, University of Texas Medical Branch, Galveston, TX, USA Sealy Center for Structural Biology, University of Texas Medical Branch, Galveston, TX, USA.
Christie ShumateDepartment of Pharmacology and Toxicology, University of Texas Medical Branch, Galveston, TX, USA Sealy Center for Structural Biology, University of Texas Medical Branch, Galveston, TX, USA.
Qingchao MengDepartment of Pharmacology and Toxicology, University of Texas Medical Branch, Galveston, TX, USA.
Young-Sam LeeDepartment of Pharmacology and Toxicology, University of Texas Medical Branch, Galveston, TX, USA.
Gayatri PatelBiochemistry and Molecular Biology, Rutgers-Robert Wood Johnson Medical School, Piscataway, NJ, USA.
Smita PatelBiochemistry and Molecular Biology, Rutgers-Robert Wood Johnson Medical School, Piscataway, NJ, USA.
Y Whitney YinDepartment of Pharmacology and Toxicology, University of Texas Medical Branch, Galveston, TX, USA Sealy Center for Structural Biology, University of Texas Medical Branch, Galveston, TX, USA ywyin@utmb.edu.
The University of Texas Medical Branch at Galveston · USRutgers, The State University of New Jersey · US

Funding

MECHANISTIC STUDIES OF HEXAMERIC HELICASESR01GM055310 · NIGMS · UNIV OF MED/DENT NJ-R W JOHNSON MED SCH · PI PATEL, SMITA S · 1997 to 2015
$4.6M
Dissecting Dual Function of Pol gamma in mtDNA Replication and Oxidative Damage RepairR01GM110591 · NIGMS · UNIVERSITY OF TEXAS MED BR GALVESTON · PI YIN, YUHUI · 2014 to 2018
$1.3M
Studies of toxicities of HIV RT inhibitors to human mitochondrial DNA polymeraseR01GM083703 · NIGMS · UNIVERSITY OF TEXAS MED BR GALVESTON · PI YIN, YUHUI · 2008 to 2012
$1.3M
NIGMS NIH HHS GM 083703NIGMS NIH HHS GM110591NIGMS NIH HHS GM55310NIGMS NIH HHS R01 GM055310NIGMS NIH HHS R01 GM083703NIGMS NIH HHS R01 GM110591
6 · The paper itself

Abstract

The human DNA polymerase gamma (Pol γ) is responsible for DNA replication in mitochondria. Pol γ is particularly susceptible to inhibition by dideoxynucleoside-based inhibitors designed to fight viral infection. Here, we report crystal structures of the replicating Pol γ-DNA complex bound to either substrate or zalcitabine, an inhibitor used for HIV reverse transcriptase. The structures reveal that zalcitabine binds to the Pol γ active site almost identically to the substrate dCTP, providing a structural basis for Pol γ-mediated drug toxicity. When compared to the apo form, Pol γ undergoes intra- and inter-subunit conformational changes upon formation of the ternary complex with primer/template DNA and substrate. We also find that the accessory subunit Pol γB, which lacks intrinsic enzymatic activity and does not contact the primer/template DNA directly, serves as an allosteric regulator of holoenzyme activities. The structures presented here suggest a mechanism for processivity of the holoenzyme and provide a model for understanding the deleterious effects of Pol γ mutations in human disease. Crystal structures of the mitochondrial DNA polymerase, Pol γ, in complex with substrate or antiviral inhibitor zalcitabine provide a basis for understanding Pol γ-mediated drug toxicity.

Indexed as

Amino Acid SequenceBase SequenceBinding SitesCatalytic DomainCrystallography, X-RayDNA-Directed DNA PolymeraseDNA, MitochondrialDNA Polymerase gammaHumansModels, MolecularMolecular Sequence DataMutationProtein ConformationReverse Transcriptase InhibitorsZalcitabineDNA-Directed DNA PolymeraseDNA, MitochondrialDNA Polymerase gammaPOLG protein, humanReverse Transcriptase InhibitorsZalcitabineDNA replicationdrug toxicityhuman DNA polymerase gammamitochondrial toxicitynucleoside reverse transcriptase inhibitors

Identifiers

PMID26056153
PMCPMC4547898
OpenAlexW1939528983

What OpenQuestion holds

Textmetadata
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.