Evidence map›Paper›PMID 38587192›Full record

ArticleNucleic acids research2024

Structure-functional characterization of Lactococcus AbiA phage defense system.

Marta Gapińska, Weronika Zajko, Krzysztof Skowronek, Małgorzata Figiel, Paweł S Krawczyk, Artyom A Egorov, Andrzej Dziembowski, Marcus J O Johansson, Marcin Nowotny

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 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing 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

14 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.

Marta GapińskaLaboratory of Protein Structure, International Institute of Molecular and Cell Biology, Warsaw, Poland.
Weronika ZajkoLaboratory of Protein Structure, International Institute of Molecular and Cell Biology, Warsaw, Poland.
Krzysztof SkowronekBiophysics Core Facility, International Institute of Molecular and Cell Biology, Warsaw, Poland.ORCID 0000-0001-9973-7085
Małgorzata FigielLaboratory of Protein Structure, International Institute of Molecular and Cell Biology, Warsaw, Poland.
Paweł S KrawczykLaboratory of RNA Biology, International Institute of Molecular and Cell Biology, Warsaw, Poland.ORCID 0000-0001-9531-1298
Artyom A EgorovDepartment of Experimental Medical Science, Lund University, 221 00 Lund, Sweden.ORCID 0000-0001-5578-5384
Andrzej DziembowskiLaboratory of RNA Biology, International Institute of Molecular and Cell Biology, Warsaw, Poland.ORCID 0000-0001-8492-7572
Marcus J O JohanssonDepartment of Experimental Medical Science, Lund University, 221 00 Lund, Sweden.
Marcin NowotnyLaboratory of Protein Structure, International Institute of Molecular and Cell Biology, Warsaw, Poland.ORCID 0000-0001-8632-0977

Funding

Foundation for Polish Science POIR.04.04.00-00-20E7/16-00
6 · The paper itself

Abstract

Bacterial reverse transcriptases (RTs) are a large and diverse enzyme family. AbiA, AbiK and Abi-P2 are abortive infection system (Abi) RTs that mediate defense against bacteriophages. What sets Abi RTs apart from other RT enzymes is their ability to synthesize long DNA products of random sequences in a template- and primer-independent manner. Structures of AbiK and Abi-P2 representatives have recently been determined, but there are no structural data available for AbiA. Here, we report the crystal structure of Lactococcus AbiA polymerase in complex with a single-stranded polymerization product. AbiA comprises three domains: an RT-like domain, a helical domain that is typical for Abi polymerases, and a higher eukaryotes and prokaryotes nucleotide-binding (HEPN) domain that is common for many antiviral proteins. AbiA forms a dimer that distinguishes it from AbiK and Abi-P2, which form trimers/hexamers. We show the DNA polymerase activity of AbiA in an in vitro assay and demonstrate that it requires the presence of the HEPN domain which is enzymatically inactive. We validate our biochemical and structural results in vivo through bacteriophage infection assays. Finally, our in vivo results suggest that AbiA-mediated phage defense may not rely on AbiA-mediated cell death.

Indexed as

BacteriophagesLactococcusBacterial ProteinsCrystallography, X-RayModels, MolecularProtein DomainsProtein MultimerizationRNA-Directed DNA PolymeraseStructure-Activity RelationshipBacterial ProteinsRNA-Directed DNA Polymerase

Identifiers

PMID38587192
PMCPMC11077055

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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.