Evidence map›Paper›PMID 39417586›Full record

ArticleNucleic acids research2024

Structural and functional insights into the interaction between the bacteriophage T4 DNA processing proteins gp32 and Dda.

Xiaoping He, Mi-Kyung Yun, Zhenmei Li, M Brett Waddell, Amanda Nourse, Kelly A Churion, Kenneth N Kreuzer, Alicia K Byrd, Stephen W White

Abstract read
In one paragraph

Article in Nucleic acids research, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing 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

8 citing papers in PubMed.

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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

9 authors.

Xiaoping HeDepartment of Structural Biology, St. Jude Children's Research Hospital, 262 Danny Thomas Place MS311, Memphis, TN 38105, USA.
Mi-Kyung YunDepartment of Host-Microbe Interactions, St. Jude Children's Research Hospital, 262 Danny Thomas Place MS221, Memphis, TN 38105, USA.
Zhenmei LiDepartment of Structural Biology, St. Jude Children's Research Hospital, 262 Danny Thomas Place MS311, Memphis, TN 38105, USA.
M Brett WaddellHartwell Center for Biotechnology, St. Jude Children's Research Hospital, 262 Danny Thomas Place MS1300, Memphis, TN 38105, USA.
Amanda NourseDepartment of Structural Biology, St. Jude Children's Research Hospital, 262 Danny Thomas Place MS311, Memphis, TN 38105, USA.
Kelly A ChurionDepartment of Structural Biology, St. Jude Children's Research Hospital, 262 Danny Thomas Place MS311, Memphis, TN 38105, USA.
Kenneth N KreuzerDepartment of Biochemistry, Duke University Medical Center, Nanaline H. Duke Box 3711, Durham, NC 27710, USA.
Alicia K ByrdDepartment of Biochemistry and Molecular Biology, University of Arkansas for Medical Sciences, 4301 W. Markham Street Slot 516, Little Rock, AR 72205, USA.ORCID 0000-0001-5484-0759
Stephen W WhiteDepartment of Structural Biology, St. Jude Children's Research Hospital, 262 Danny Thomas Place MS311, Memphis, TN 38105, USA.ORCID 0000-0001-8188-5944

Funding

Viral Vector Technology (VVTSR)P30CA021765 · NCI · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI CHARLES ROBERTS · 1985 to 2026
$166.9M
Translational Regulation in Normal Erythropoiesis and Diamond Blackfan AnemiaP20GM121293 · NIGMS · ARKANSAS CHILDREN'S HOSPITAL RES INST · PI Alan Tackett, Sean D. Taverna · 2017 to 2026
$27.6M
Recombination and fork progression in bacteriophage T4R01GM066934 · NIGMS · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI KREUZER, KENNETH N, WHITE, STEPHEN W · 2004 to 2013
$2.8M
American Lebanese Syrian Associated CharitiesNCI NIH HHS CA021765NCI NIH HHS P30 CA021765NIGMS NIH HHS GM066934NIGMS NIH HHS P20 GM121293NIGMS NIH HHS R01 GM066934
6 · The paper itself

Abstract

Bacteriophage T4 is a classic model system for studying the mechanisms of DNA processing. A key protein in T4 DNA processing is the gp32 single-stranded DNA-binding protein. gp32 has two key functions: it binds cooperatively to single-stranded DNA (ssDNA) to protect it from nucleases and remove regions of secondary structure, and it recruits proteins to initiate DNA processes including replication and repair. Dda is a T4 helicase recruited by gp32, and we purified and crystallized a gp32-Dda-ssDNA complex. The low-resolution structure revealed how the C-terminus of gp32 engages Dda. Analytical ultracentrifugation analyses were consistent with the crystal structure. An optimal Dda binding peptide from the gp32 C-terminus was identified using surface plasmon resonance. The crystal structure of the Dda-peptide complex was consistent with the corresponding interaction in the gp32-Dda-ssDNA structure. A Dda-dependent DNA unwinding assay supported the structural conclusions and confirmed that the bound gp32 sequesters the ssDNA generated by Dda. The structure of the gp32-Dda-ssDNA complex, together with the known structure of the gp32 body, reveals the entire ssDNA binding surface of gp32. gp32-Dda-ssDNA complexes in the crystal are connected by the N-terminal region of one gp32 binding to an adjacent gp32, and this provides key insights into this interaction.

Indexed as

Bacteriophage T4DNA-Binding ProteinsDNA, Single-StrandedModels, MolecularProtein BindingViral ProteinsBinding SitesCrystallography, X-RayDNA HelicasesDNA, ViralDNA-Binding ProteinsDNA HelicasesDNA, Single-StrandedDNA, Viralgp32 protein, Enterobacteria phage T4Viral Proteins

Identifiers

PMID39417586
PMCPMC11551737

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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.