Evidence map›Paper›PMID 27435188›Full record

ArticleNature communications2016

Multiple capsid-stabilizing interactions revealed in a high-resolution structure of an emerging picornavirus causing neonatal sepsis.

Shabih Shakeel, Brenda M Westerhuis, Ausra Domanska, Roman I Koning, Rishi Matadeen, Abraham J Koster, Arjen Q Bakker, Tim Beaumont, Katja C Wolthers, Sarah J Butcher

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.

0numbers the graph read from it
0cells of the map it votes in
34citing papers in PubMed
4.7field-weighted citation impact, top 4% 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

34 citing papers in PubMed, 48 citations in OpenAlex.

  1. Article
  2. Article
  3. New Advances in Small Molecules Targeted at Viral Capsid-Genome Binding.International journal of molecular sciences · 2025
    Review
  4. Journal of virology · 2025
    Review
  5. Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Article
  15. Viral structural proteins as targets for antivirals.Current opinion in virology · 2020
    Review
  16. Article
  17. Article
  18. Article
  19. Article
  20. Article
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 4 institutions in 2 countries.

Shabih ShakeelInstitute of Biotechnology and Department of Biological Sciences, Viikinkaari 1, 00014 University of Helsinki, Finland.ORCID 0000-0003-3651-6087
Brenda M WesterhuisDepartment of Medical Microbiology, Laboratory of Clinical Virology, Academic Medical Center, Meibergdreef 9, 1105 Amsterdam, The Netherlands.
Ausra DomanskaInstitute of Biotechnology and Department of Biological Sciences, Viikinkaari 1, 00014 University of Helsinki, Finland.
Roman I KoningLeiden University Medical Center, Department of Cell Biology, Postal Zone S1-P, P.O. Box 9600, 2300 RC Leiden, The Netherlands.ORCID 0000-0001-6736-7147
Rishi MatadeenNetherlands Centre for Electron Nanoscopy, Institute of Biology, Ensteinweg 55, 2333 RC Leiden, The Netherlands.
Abraham J KosterLeiden University Medical Center, Department of Cell Biology, Postal Zone S1-P, P.O. Box 9600, 2300 RC Leiden, The Netherlands.
Arjen Q BakkerAIMM Therapeutics, Academic Medical Center, Meibergdreef 59, 1105 BA Amsterdam, The Netherlands.
Tim BeaumontAIMM Therapeutics, Academic Medical Center, Meibergdreef 59, 1105 BA Amsterdam, The Netherlands.
Katja C WolthersDepartment of Medical Microbiology, Laboratory of Clinical Virology, Academic Medical Center, Meibergdreef 9, 1105 Amsterdam, The Netherlands.
Sarah J ButcherInstitute of Biotechnology and Department of Biological Sciences, Viikinkaari 1, 00014 University of Helsinki, Finland.ORCID 0000-0001-7060-5871
Amsterdam UMC Location University of Amsterdam · NLUniversity of Helsinki · FILeiden University Medical Center · NLCentre for Human Drug Research · NL

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The poorly studied picornavirus, human parechovirus 3 (HPeV3) causes neonatal sepsis with no therapies available. Our 4.3-Å resolution structure of HPeV3 on its own and at 15 Å resolution in complex with human monoclonal antibody Fabs demonstrates the expected picornavirus capsid structure with three distinct features. First, 25% of the HPeV3 RNA genome in 60 sites is highly ordered as confirmed by asymmetric reconstruction, and interacts with conserved regions of the capsid proteins VP1 and VP3. Second, the VP0 N terminus stabilizes the capsid inner surface, in contrast to other picornaviruses where on expulsion as VP4, it forms an RNA translocation channel. Last, VP1's hydrophobic pocket, the binding site for the antipicornaviral drug, pleconaril, is blocked and thus inappropriate for antiviral development. Together, these results suggest a direction for development of neutralizing antibodies, antiviral drugs based on targeting the RNA-protein interactions and dissection of virus assembly on the basis of RNA nucleation.

Indexed as

Amino Acid SequenceCapsidCapsid ProteinsCrystallography, X-RayHumansModels, MolecularMolecular Sequence DataNeonatal SepsisParechovirusPicornaviridae InfectionsProtein BindingProtein ConformationSequence AlignmentVirus AssemblyCapsid Proteins

Identifiers

PMID27435188
PMCPMC4961769
OpenAlexW2486008291

What OpenQuestion holds

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LicenceCC BY
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.