PXD054099

PXD054099 is an original dataset announced via ProteomeXchange.

Title	Identifying subcellular structure components in Escherichia Coli by crosslinking and SEC-MS
Description	Cells are comprised of a broad spectrum of structures that compartmentalize biochemical and signaling mechanisms. These structures can be comprised of many biomolecules, but especially lipids, proteins, and nucleic acids. Options are limited to quantify or discover new subcellular structures. We explored a proteomics approach to this challenge chemical crosslinking followed by size-exclusion chromatography and mass spectrometry (SEC-MS). Formaldehyde crosslinking was used to preserve the weak molecular interactions responsible for many protein and nucleic acid assemblies. We demonstrate that when expressed ectopically in E. Coli, large structures of a known assembly protein, FUS, can be detected through SEC-MS. We then show that E. Coli proteins are enriched in particles of large or medium size due to formaldehyde crosslinking. Last, analysis of SEC-MS showed evidence of previously characterized E. Coli protein assemblies and condensates, as well as potentially novel associations of prokaryote metabolism with large sub-cellular bodies. We propose this unbiased method can be used to stimulate or supplement targeted methods for discovery of new cellular bodies in a wide range of cell types.
HostingRepository	PRIDE
AnnounceDate	2026-05-25
AnnouncementXML	Submission_2026-05-24_19:10:47.534.xml
DigitalObjectIdentifier	https://doi.org/10.6019/PXD054099
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Paul Langlais
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: NEWT:562;
ModificationList	phosphorylated residue; acetylated residue; monohydroxylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2024-07-22 02:36:57	ID requested
⏵ 1	2026-05-24 19:10:48	announced

10.1002/pmic.70105;

Victor RA, Lipinski A, Langlais PR, Schwartz JC, Identifying Subcellular Structure Components in Escherichia Coli by Crosslinking and SEC-MS. Proteomics, 26(5):27-36(2026) [pubmed]

10.6019/PXD054099;

submitter keyword: size-exclusion chromatography and mass spectrometry

Jacob Schwartz
contact affiliation	University of Arizona College of Medicine & Cancer Center
contact email	jcschwartz@arizona.edu
lab head
Paul Langlais
contact affiliation	University of Arizona
contact email	langlais@deptofmed.arizona.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD054099
     1. Label: PRIDE project
     2. Name: Identifying subcellular structure components in Escherichia Coli by crosslinking and SEC-MS