Evidence map›Paper›PMID 34196617›Full record

ArticleActa crystallographica. Section D, Structural biology2021

Entropic pressure controls the oligomerization of the Vibrio cholerae ParD2 antitoxin.

Gabriela Garcia-Rodriguez, Yana Girardin, Alexander N Volkov, Ranjan Kumar Singh, Gopinath Muruganandam, Jeroen Van Dyck, Frank Sobott, Wim Versées, Daniel Charlier, Remy Loris

Open access · hybridAbstract read
In one paragraph

Article in Acta crystallographica. Section D, Structural biology, 2021. 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
1.0field-weighted citation impact, top 25% 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

4 citing papers in PubMed, 6 citations in OpenAlex.

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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

10 authors at 3 institutions in 2 countries.

Gabriela Garcia-RodriguezStructural Biology Brussels, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium.ORCID 0000-0002-7996-7622
Yana GirardinStructural Biology Brussels, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium.ORCID 0000-0001-5765-5794
Alexander N VolkovStructural Biology Brussels, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium.ORCID 0000-0002-0103-059X
Ranjan Kumar SinghStructural Biology Brussels, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium.ORCID 0000-0002-6929-0670
Gopinath MuruganandamStructural Biology Brussels, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium.ORCID 0000-0002-6642-3909
Jeroen Van DyckDepartment of Chemistry, Universiteit Antwerpen, Groenenborgerlaan 171, 2020 Antwerp, Belgium.ORCID 0000-0003-2233-0687
Frank SobottDepartment of Chemistry, Universiteit Antwerpen, Groenenborgerlaan 171, 2020 Antwerp, Belgium.ORCID 0000-0001-9029-1865
Wim VerséesStructural Biology Brussels, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium.ORCID 0000-0002-4695-696X
Daniel CharlierResearch Group of Microbiology, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium.ORCID 0000-0002-6844-376X
Remy LorisStructural Biology Brussels, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium.ORCID 0000-0002-8862-3338
Vrije Universiteit Brussel · BEUniversity of Antwerp · BEUniversity of Leeds · GB

Funding

Fonds Wetenschappelijk Onderzoek 1164620NFonds Wetenschappelijk Onderzoek G.0033.20NFonds Wetenschappelijk Onderzoek G.0226.17NiNEXT 4146Vrije Universiteit Brussel SPR13
6 · The paper itself

Abstract

ParD2 is the antitoxin component of the parDE2 toxin-antitoxin module from Vibrio cholerae and consists of an ordered DNA-binding domain followed by an intrinsically disordered ParE-neutralizing domain. In the absence of the C-terminal intrinsically disordered protein (IDP) domain, V. cholerae ParD2 (VcParD2) crystallizes as a doughnut-shaped hexadecamer formed by the association of eight dimers. This assembly is stabilized via hydrogen bonds and salt bridges rather than by hydrophobic contacts. In solution, oligomerization of the full-length protein is restricted to a stable, open decamer or dodecamer, which is likely to be a consequence of entropic pressure from the IDP tails. The relative positioning of successive VcParD2 dimers mimics the arrangement of Streptococcus agalactiae CopG dimers on their operator and allows an extended operator to wrap around the VcParD2 oligomer.

Indexed as

AntitoxinsBacterial ProteinsDNA-Binding ProteinsProtein MultimerizationVibrio choleraeAntitoxinsBacterial ProteinsDNA-Binding ProteinsparD protein, Bacteriaintrinsically disordered proteinsoligomer interfaceParD2protein–DNA interactionsprotein oligomersquaternary structuretoxin–antitoxin moduletranscription regulationVibrio cholerae

Identifiers

PMID34196617
PMCPMC8251345
OpenAlexW3176455676

What OpenQuestion holds

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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.