PXD065907-1

PXD065907 is an original dataset announced via ProteomeXchange.

Title	Whole membrane proteome for depletion of Bam subunits in F. johnsoniae
Description	In Gram-negative bacteria the outer membrane (OM) is the first line of defence against antimicrobial agents and immunological attacks. A key part of OM biogenesis is the insertion of OM proteins (OMPs) by the β-barrel–assembly machinery (BAM). Here we report the cryo-electron microscopy (cryoEM) structure of a BAM complex isolated from Flavobacterium johnsoniae, a member of the Bacteroidota, a phylum that includes key human commensals and major anaerobic pathogens. This BAM complex is extensively modified from the canonical Escherichia coli system and includes an extracellular canopy that overhangs the substrate folding site and a subunit that inserts into the BAM pore. We find that the novel subunits involved in forming the extracellular canopy, BamG and BamH, are required for BAM function and conserved across the Bacteroidota, suggesting that they form an essential extension to the canonical BAM core in this phylum. For BamH, isolation of a suppressor mutation allows the separation of its essential and non-essential functions. The need for a highly remodelled and enhanced BAM complex reflects the unusually complex membrane proteins found in the OM of the Bacteroidota.
HostingRepository	PRIDE
AnnounceDate	2025-08-04
AnnouncementXML	Submission_2025-08-04_09:51:37.757.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Vaishnavi Ravikumar
SpeciesList	scientific name: Flavobacterium johnsoniae UW101; NCBI TaxID: 376686;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2025-07-08 06:59:29	ID requested
⏵ 1	2025-08-04 09:51:38	announced

Dataset with its publication pending

submitter keyword: Bacteroidota, depletion, OMPs, membrane proteome,BAM

Marjorie Fournier
contact affiliation	University of Oxford, Department of Biochemistry South Parks Road, Oxford, OX13QU
contact email	marjorie.fournier@bioch.ox.ac.uk
lab head
Vaishnavi Ravikumar
contact affiliation	Copenhagen University Hospital
contact email	vaishnavi.ravikumar@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD065907
     1. Label: PRIDE project
     2. Name: Whole membrane proteome for depletion of Bam subunits in F. johnsoniae