PXD063709

PXD063709 is an original dataset announced via ProteomeXchange.

Title	LC-MS/MS analysis of Gd-IgA1 and secretary TfR1 cross-linked complex
Description	The retention of galactose-deficient IgA1 (Gd-IgA1) in the glomerular mesangium is a hallmark of IgA nephropathy (IgAN). The immune complex formed by Gd-IgA1 binds to transferrin receptor 1 (TfR1) and deposits on mesangial cell, inducing cell proliferation, inflammatory response, matrix secretion, etc., causes organic damage and dysfunction of the kidney. Even though, the mechanism of how Gd-IgA1 recognize and bind to TfR1 is unclear. In this experiment, we ami to determine the specific interaction region responsible for Gd-IgA1 and TfR1. We prepared a complex of Gd-IgA1 and TfR1 by incubating the two proteins under acidic conditions and stabilizing it using the chemical cross-linking agent glutaraldehyde. And then, the gel bands corresponding to the Gd-IgA1-TfR1 complex was exexcised from the SDS-PAGE gel and analyzed by high-resolution mass spectrometry. This analysis identified fragments containing the hinge peptide sequence, with the R276 residue interacting with the E350 and D356 residues in the apical domain of TfR1. Our results reveal that the hinge peptide of Gd-IgA1 interacts specifically with the apical domain of TfR1.
HostingRepository	PRIDE
AnnounceDate	2025-07-14
AnnouncementXML	Submission_2025-07-13_16:07:06.871.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jingpeng Fu
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos; LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2025-05-07 00:08:38	ID requested
⏵ 1	2025-07-13 16:07:07	announced

Si M, Fu J, Fang M, Lu Y, Huang J, Li H, Wang P, Liao M, Zhu J, Li P, Zhong W, Guo Z, Yang W, Ye Z, Hu H, Yu X, Lysosome-mediated aggregation of galactose-deficient IgA1 with transferrin receptor 1 links to IgA nephropathy. Nat Commun, 16(1):5536(2025) [pubmed]

10.1038/s41467-025-60819-w;

submitter keyword: galactose-deficient IgA1,transferrin receptor, IgA nephropathy

Xueqing Yu
contact affiliation	Department of Nephrology, Guangdong Provincial People’s Hospital, Guangdong Academy of Medical Sciences, Guangzhou, China;Guangdong-Hong Kong Joint Laboratory on Immunological and Genetic Kidney Diseases; Guangzhou, China.
contact email	yuxueqing@gdph.org.cn
lab head
Jingpeng Fu
contact affiliation	Shenzhen Bay labratary
contact email	fujingpeng1987@126.com
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/2025/07/PXD063709

PRIDE project URI

• PRIDE
  1. PXD063709
     1. Label: PRIDE project
     2. Name: LC-MS/MS analysis of Gd-IgA1 and secretary TfR1 cross-linked complex