Evidence map›Paper›PMID 34880256›Full record

ArticleNature communications2021

Plasticity within the barrel domain of BamA mediates a hybrid-barrel mechanism by BAM.

Runrun Wu, Jeremy W Bakelar, Karl Lundquist, Zijian Zhang, Katie M Kuo, David Ryoo, Yui Tik Pang, Chen Sun, Tommi White, Thomas Klose and 3 more

Abstract read
In one paragraph

Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 56 papers.

0numbers the graph read from it
0cells of the map it votes in
56citing 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

56 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
  4. Article
  5. Article
  6. A mechanism for substrate quality control in outer membrane protein assembly.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  7. Review
  8. Structures of folding intermediates on BAM show diverse substrates fold by a conserved mechanism.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  9. Article
  10. Article
  11. Review
  12. Article
  13. A fluorescent reporter and single-turnover kinetics reveal insight into BAM complex function.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  14. Small siphophage binding to an open state of the LptDE outer membrane lipopolysaccharide translocon.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  15. Article
  16. Article
  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

13 authors.

Runrun Wu *Interdisciplinary Life Science - PULSe, Purdue University, West Lafayette, IN, 47907, USA.
Jeremy W Bakelar *Markey Center for Structural Biology, Department of Biological Sciences, Purdue University, West Lafayette, IN, 47907, USA.
Karl Lundquist *School of Physics, Georgia Institute of Technology, Atlanta, GA, 30332, USA.ORCID http://orcid.org/0000-0002-3418-8342
Zijian ZhangSchool of Physics, Georgia Institute of Technology, Atlanta, GA, 30332, USA.
Katie M KuoSchool of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, 30332, USA.
David RyooInterdisciplinary Bioengineering Graduate Program, Georgia Institute of Technology, Atlanta, GA, 30332, USA.
Yui Tik PangSchool of Physics, Georgia Institute of Technology, Atlanta, GA, 30332, USA.ORCID http://orcid.org/0000-0003-4843-4468
Chen SunMarkey Center for Structural Biology, Department of Biological Sciences, Purdue University, West Lafayette, IN, 47907, USA.
Tommi WhiteElectron Microscopy Core Research Facility, W125 Vet Med Building, University of Missouri, Columbia, MO, 65211, USA.ORCID http://orcid.org/0000-0001-7283-3755
Thomas KloseMarkey Center for Structural Biology, Department of Biological Sciences, Purdue University, West Lafayette, IN, 47907, USA.ORCID http://orcid.org/0000-0002-2150-9792
Wen JiangInterdisciplinary Life Science - PULSe, Purdue University, West Lafayette, IN, 47907, USA.ORCID http://orcid.org/0000-0002-1292-2411
James C GumbartSchool of Physics, Georgia Institute of Technology, Atlanta, GA, 30332, USA. gumbart@physics.gatech.edu.
Nicholas NoinajInterdisciplinary Life Science - PULSe, Purdue University, West Lafayette, IN, 47907, USA. nnoinaj@purdue.edu.ORCID http://orcid.org/0000-0001-6361-2336

Funding

Neisseria gonorrhoeae metal transporters that subvert nutritional immunityR01AI127793 · NIAID · VIRGINIA COMMONWEALTH UNIVERSITY · PI CYNTHIA N CORNELISSEN, Alison K Criss · 2017 to 2026
$6.8M
Midwest Consortium for High Resolution Cryoelectron MicroscopyU24GM116789 · NIGMS · PURDUE UNIVERSITY · PI BULLITT, ESTHER, DAI, WEI · 2017 to 2021
$3.5M
Structural Characterization of the TOC Protein Translocon MachineryR01GM127896 · NIGMS · PURDUE UNIVERSITY · PI NOINAJ, NICHOLAS · 2018 to 2022
$1.5M
Dynamic characterization of outer-membrane-protein biogenesis by the BAM and TAM complexesR01GM123169 · NIGMS · GEORGIA INSTITUTE OF TECHNOLOGY · PI GUMBART, JAMES C. · 2017 to 2021
$1.4M
Unraveling the mechanism by which the BAM complex mediates OMP biogenesisR01GM127884 · NIGMS · PURDUE UNIVERSITY · PI NOINAJ, NICHOLAS · 2019 to 2022
$1.2M
Mechanistic insight into the role of the BAM complex in E. coliF32GM121021 · NIGMS · PURDUE UNIVERSITY · PI BAKELAR, JEREMY WINSTON · 2017 to 2018
$88k
NIAID NIH HHS R01 AI127793NIGMS NIH HHS F32 GM121021NIGMS NIH HHS R01 GM123169NIGMS NIH HHS R01 GM127884NIGMS NIH HHS R01 GM127896NIGMS NIH HHS U24 GM116789
6 · The paper itself

Abstract

In Gram-negative bacteria, the biogenesis of β-barrel outer membrane proteins is mediated by the β-barrel assembly machinery (BAM). The mechanism employed by BAM is complex and so far- incompletely understood. Here, we report the structures of BAM in nanodiscs, prepared using polar lipids and native membranes, where we observe an outward-open state. Mutations in the barrel domain of BamA reveal that plasticity in BAM is essential, particularly along the lateral seam of the barrel domain, which is further supported by molecular dynamics simulations that show conformational dynamics in BAM are modulated by the accessory proteins. We also report the structure of BAM in complex with EspP, which reveals an early folding intermediate where EspP threads from the underside of BAM and incorporates into the barrel domain of BamA, supporting a hybrid-barrel budding mechanism in which the substrate is folded into the membrane sequentially rather than as a single unit.

Indexed as

Bacterial Outer Membrane ProteinsEscherichia coliEscherichia coli ProteinsLipidsMolecular Dynamics SimulationMutationProtein FoldingBacterial Outer Membrane ProteinsBamA protein, E coliEscherichia coli ProteinsLipids

Identifiers

PMID34880256
PMCPMC8655018

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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.