PXD004666

PXD004666 is an original dataset announced via ProteomeXchange.

Title	Accessory subunits are integral for assembly and function of human mitochondrial complex I
Description	Complex I (NADH:ubiquinone oxidoreductase) is the first enzyme of the mitochondrial respiratory chain (RC) and is composed of 44 different subunits in humans, making it one of the largest known multi-subunit membrane protein complexes. Complex I exists in supercomplex forms with RC complexes III and IV, which are together required for the generation of a transmembrane proton gradient used for the synthesis of ATP. Complex I is also a major source of damaging reactive oxygen species in the cell and its dysfunction is associated with mitochondrial disease, Parkinson’s disease and aging. Bacterial and human complex I share 14 core subunits that are essential for enzymatic function, however the role and requirement of the remaining 30 human accessory subunits is unclear. The incorporation of accessory subunits into the complex increases the energetic cost to the cell and has necessitated the involvement of a suite of assembly factors for complex I biogenesis. We used gene-editing to generate human knockout cell lines for each accessory subunit. We found that 25 subunits are strictly required for assembly of a functional complex and one subunit is essential for cell viability. Quantitative proteomic analysis of all 30 cell lines revealed that subunits belong to discrete complex I modules, and their loss affects the stability of subunits within these modules. Known assembly factors were found to correlate with most modules. Analysis of proteomic changes when other modules were destabilised revealed ATP5SL and DMAC1 as novel factors required to assemble the distal portion of the complex I membrane arm. Our results demonstrate the broad importance of accessory subunits in the structure and function of human complex I. Coupling gene-editing technology with large-scale proteomics represents a powerful tool for dissecting large multi-subunit complexes and enabling the study of complex dysfunction at a cellular level.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:31:50.673.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	David Stroud
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive; LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2016-07-28 02:03:41	ID requested
1	2016-09-26 11:38:34	announced
2	2020-04-22 03:06:56	announced	2020-04-22: Updated publication reference for PubMed record(s): 32161263, 27626371.
⏵ 3	2024-10-22 04:32:02	announced	2024-10-22: Updated project metadata.

10.1038/s41467-020-14999-2;

Zhang S, Relji, ć B, Liang C, Kerouanton B, Francisco JC, Peh JH, Mary C, Jagannathan NS, Olexiouk V, Tang C, Fidelito G, Nama S, Cheng RK, Wee CL, Wang LC, Duek Roggli P, Sampath P, Lane L, Petretto E, Sobota RM, Jesuthasan S, Tucker-Kellogg L, Reversade B, Menschaert G, Sun L, Stroud DA, Ho L, Mitochondrial peptide BRAWNIN is essential for vertebrate respiratory complex III assembly. Nat Commun, 11(1):1312(2020) [pubmed]

Stroud DA, Surgenor EE, Formosa LE, Reljic B, Frazier AE, Dibley MG, Osellame LD, Stait T, Beilharz TH, Thorburn DR, Salim A, Ryan MT, Accessory subunits are integral for assembly and function of human mitochondrial complex I. Nature, 538(7623):123-126(2016) [pubmed]

10.1038/nature19754;

curator keyword: Biological

submitter keyword: AP-MS, nadh, talen, hek293t, crispr, oxphos, LC-MS, SILAC, mitochondria,human

David Arthur Stroud
contact affiliation	Department of Biochemistry and Molecular Biology, Mitochondria lab, Monash University, Clayton 3800, Australia
contact email	d.stroud@monash.edu
lab head
David Stroud
contact affiliation	The University of Melbourne
contact email	david.stroud@unimelb.edu.au
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2016/09/PXD004666

PRIDE project URI

• PRIDE
  1. PXD004666
     1. Label: PRIDE project
     2. Name: Accessory subunits are integral for assembly and function of human mitochondrial complex I