PXD067659

PXD067659 is an original dataset announced via ProteomeXchange.

Title	Cross-linking mass spectrometry for structure analysis of the intrinsically disordered Tau and phosphorylated Tau protein
Description	Intrinsically disordered proteins (IDPs), such as Tau and phosphorylated Tau (pTau), pose challenges for structural analysis using traditional methods like X-ray crystallography or cryo-EM. However, alternative approaches can still provide insights into their three-dimensional organization at moderate spatial resolution. One such method is cross-linking mass spectrometry (XL-MS), which has become a valuable tool for studying protein structures in solution. The data files deposited here were generated using a novel XL-MS-based method designed to analyze the folding behavior of IDPs. This method constructs weighted interaction networks from cross-linked residue pairs without relying on predefined secondary structure models. Structural differences between protein conformations are assessed by comparing the organization of loop structures within these networks. Validation using bovine serum albumin (BSA) in both native and denatured states indicates that at least 500 cross-links—requiring 5–10 replicate measurements—are necessary for reliable detection of structural changes. Leave-one-out analysis further confirms that these structural transitions are global, emphasizing the need for comprehensive cross-link datasets. Applied to Tau and pTau during arachidonic acid-induced aggregation, the method reveals distinct patterns of structural evolution between the two proteins. The corresponding XL-MS datasets are available here.
HostingRepository	PRIDE
AnnounceDate	2026-01-06
AnnouncementXML	Submission_2026-01-06_06:03:33.457.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Cristian Arsene
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	phosphorylated residue
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2025-08-24 07:27:39	ID requested
⏵ 1	2026-01-06 06:03:34	announced

Dataset with its publication pending

submitter keyword: None

Cristian Arsene
contact affiliation	Physikalisch-Technische Bundesanstalt (PTB), 38116 Braunschweig, Germany
contact email	christian.arsene@ptb.de
lab head
Cristian Arsene
contact affiliation	Physikalisch-Technische Bundesanstalt (PTB)
contact email	christian.arsene@ptb.de
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/2026/01/PXD067659

PRIDE project URI

• PRIDE
  1. PXD067659
     1. Label: PRIDE project
     2. Name: Cross-linking mass spectrometry for structure analysis of the intrinsically disordered Tau and phosphorylated Tau protein