Evidence map›Paper›PMID 29581438›Full record

ArticleScientific reports2018

Structural modelling of the DNAJB6 oligomeric chaperone shows a peptide-binding cleft lined with conserved S/T-residues at the dimer interface.

Christopher A G Söderberg, Cecilia Månsson, Katja Bernfur, Gudrun Rutsdottir, Johan Härmark, Sreekanth Rajan, Salam Al-Karadaghi, Morten Rasmussen, Peter Höjrup, Hans Hebert and 1 more

Open access · goldAbstract read
In one paragraph

Article in Scientific reports, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.

0numbers the graph read from it
0cells of the map it votes in
33citing papers in PubMed
2.4field-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

33 citing papers in PubMed, 63 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. DNAJB6: A guardian against neurodegeneration.Neural regeneration research · 2026
    Article
  5. Article
  6. Article
  7. Air-Water Interfacial Adsorption of the Chaperone Protein DNAJB6b.Langmuir : the ACS journal of surfaces and colloids · 2025
    Article
  8. Review
  9. Factors affecting protein recovery during Hsp40 affinity profiling.Analytical and bioanalytical chemistry · 2024
    Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Article
  15. Article
  16. Amyloid inhibition by molecular chaperonesRSC medicinal chemistry · 2023
    Review
  17. Article
  18. Review
  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

11 authors at 4 institutions in 3 countries.

Christopher A G SöderbergMAX IV Laboratory, Lund University, PO Box 118, SE-221 00, Lund, Sweden. christopher.soderberg@ri.se.
Cecilia MånssonDepartment of Biochemistry and Structural Biology, Center for Molecular Protein Science, Lund University, PO Box 124, SE-221 00, Lund, Sweden.
Katja BernfurDepartment of Biochemistry and Structural Biology, Center for Molecular Protein Science, Lund University, PO Box 124, SE-221 00, Lund, Sweden.
Gudrun RutsdottirDepartment of Biochemistry and Structural Biology, Center for Molecular Protein Science, Lund University, PO Box 124, SE-221 00, Lund, Sweden.
Johan HärmarkSchool of Technology and Health, KTH Royal Institute of Technology and Department of Biosciences and Nutrition, Karolinska Institute, Stockholm, Sweden.
Sreekanth RajanSchool of Biological Sciences, Nanyang Technological University, Singapore, 637551, Singapore.
Salam Al-KaradaghiDepartment of Biochemistry and Structural Biology, Center for Molecular Protein Science, Lund University, PO Box 124, SE-221 00, Lund, Sweden.
Morten RasmussenDepartment of Biochemistry and Molecular Biology, University of Southern Denmark, Odense, Denmark.
Peter HöjrupDepartment of Biochemistry and Molecular Biology, University of Southern Denmark, Odense, Denmark.
Hans HebertSchool of Technology and Health, KTH Royal Institute of Technology and Department of Biosciences and Nutrition, Karolinska Institute, Stockholm, Sweden.ORCID http://orcid.org/0000-0002-3220-9402
Cecilia EmanuelssonDepartment of Biochemistry and Structural Biology, Center for Molecular Protein Science, Lund University, PO Box 124, SE-221 00, Lund, Sweden. Cecilia.Emanuelsson@biochemistry.lu.se.ORCID http://orcid.org/0000-0001-8762-477X
Lund University · SEKarolinska Institutet · SEUniversity of Southern Denmark · DKNanyang Technological University · SG

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The remarkably efficient suppression of amyloid fibril formation by the DNAJB6 chaperone is dependent on a set of conserved S/T-residues and an oligomeric structure, features unusual among DNAJ chaperones. We explored the structure of DNAJB6 using a combination of structural methods. Lysine-specific crosslinking mass spectrometry provided distance constraints to select a homology model of the DNAJB6 monomer, which was subsequently used in crosslink-assisted docking to generate a dimer model. A peptide-binding cleft lined with S/T-residues is formed at the monomer-monomer interface. Mixed isotope crosslinking showed that the oligomers are dynamic entities that exchange subunits. The purified protein is well folded, soluble and composed of oligomers with a varying number of subunits according to small-angle X-ray scattering (SAXS). Elongated particles (160 × 120 Å) were detected by electron microscopy and single particle reconstruction resulted in a density map of 20 Å resolution into which the DNAJB6 dimers fit. The structure of the oligomer and the S/T-rich region is of great importance for the understanding of the function of DNAJB6 and how it can bind aggregation-prone peptides and prevent amyloid diseases.

Indexed as

Protein ConformationAmyloidAmyloid beta-PeptidesBiophysical PhenomenaHSP40 Heat-Shock ProteinsHumansLysineMass SpectrometryModels, StructuralMolecular ChaperonesMolecular Dynamics SimulationNerve Tissue ProteinsProtein BindingProtein MultimerizationScattering, Small AngleX-Ray DiffractionAmyloidAmyloid beta-PeptidesDNAJB6 protein, humanHSP40 Heat-Shock ProteinsLysineMolecular ChaperonesNerve Tissue Proteins

Identifiers

PMID29581438
PMCPMC5979959
OpenAlexW2794145572

What OpenQuestion holds

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LicenceCC BY
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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.