PXD015111-1

PXD015111 is an original dataset announced via ProteomeXchange.

Title	Decoding the stoichiometric composition and organization of bacterial metabolosomes C4PR_LIV
Description	Self-assembly of proteins into complexes with defined stoichiometry and organization is fundamental to the structure and functionality of many molecular machines in biology. Some enteric bacteria including Salmonella have evolved the propanediol-utilizing microcompartment (Pdu MCP), a specialized proteinaceous organelle that is essential for 1,2-propanediol degradation and enteric pathogenesis. Pdu MCPs are a family of bacterial microcompartments that are self-assembled from thousands of protein molecules within the bacterial cytosol. Inside the Pdu MCP, several catalytical enzymes and cofactors involved in reactions for metabolizing 1,2-propanediol are encapsulated in a semi-permeable protein shell that comprises multi-subunit proteins in hexameric, pentameric, and trimeric states. Here, we seek a comprehensive understanding of the stoichiometric composition and organization of Pdu MCPs. We obtain accurate stoichiometry of shell proteins and internal enzymes of the natural Pdu MCP by QconCAT-driven quantitative mass spectrometry. Genetic deletion of the major shell protein and absolute stoichiometry analysis reveal the stoichiometric and structural remodeling of Pdu MCPs. Our new knowledge about the protein stoichiometry leads us to propose a model of the Pdu metabolosome structure. Moreover, atomic force microscopy of Pdu MCPs at the near-physiological condition illustrates the inherent flexibility of the Pdu MCP structure and the key role of cargo enzymes in maintaining mechanical stiffness of the biological architecture. These structural insights into the Pdu MCP will be critical for both delineating the general principles underlying bacterial organelle formation, structural robustness and function, and repurposing natural microcompartments using synthetic biology for biotechnological applications.
HostingRepository	PRIDE
AnnounceDate	2020-05-11
AnnouncementXML	Submission_2020-05-11_07:43:12.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD015111
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Deborah Simpson
SpeciesList	scientific name: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2; NCBI TaxID: 99287;
ModificationList	Label:13C(6)15N(2); Label:13C(6)15N(4); Oxidation; Carbamidomethyl
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2019-08-21 02:36:59	ID requested
⏵ 1	2020-05-11 07:43:13	announced

Yang M, Simpson DM, Wenner N, Brownridge P, Harman VM, Hinton JCD, Beynon RJ, Liu LN, Decoding the stoichiometric composition and organisation of bacterial metabolosomes. Nat Commun, 11(1):1976(2020) [pubmed]

submitter keyword: Propanediol-utilising microcompartment, Pdu MCP, QconCAT, Salmonella

Prof Lu-Ning Lui
contact affiliation	Chair of Microbial Bioenergetics and Bioengineering Institute of Integrative Biology, University of Liverpool,Crown Street, Liverpool L69 7ZB, United Kingdom
contact email	luning.liu@liverpool.ac.uk
lab head
Deborah Simpson
contact affiliation	University of Liverpool
contact email	dsimpson@liverpool.ac.uk
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD015111
     1. Label: PRIDE project
     2. Name: Decoding the stoichiometric composition and organization of bacterial metabolosomes C4PR_LIV