PXD057422-1

PXD057422 is an original dataset announced via ProteomeXchange.

Title	Developing Chemical Tools for a Systematic Exploration of the Ubiquitin-like Protein FUBI
Description	Ubiquitin-like proteins constitute a diverse group of post-translational modifiers that share structural and functional similarities with Ubiquitin, but play distinct roles in cellular signaling. The ubiquitin-like protein FUBI acts as a positive regulator of apoptosis in cancers, where its down-regulation is significantly associated with poor prognosis. Despite the clinical and biological relevance of FUBI-related functions, the intricate regulatory mechanisms orchestrated by FUBI remain elusive. To address this knowledge gap, we developed a linear synthetic platform to generate FUBI-based chemical tools. This platform enables the site-specific incorporation of unnatural building blocks and the introduction of fluorophores, tags, reactive warheads through N- and C-terminal labeling strategies. Using this platform, we created activity-based probes (ABPs) for FUBI conjugation and deconjugation enzymes, validating them in cell lysate-based assays and proteomics. Additionally, we synthesized K25 triazole-linked Di-FUBI as bioisosteric uncleavable mimic of native Di-FUBI to study the proteolytic cleavage of FUBI chains. Collectively, these ABPs demonstrate the versatility and specificity of our synthetic FUBI platform, advancing the characterization of FUBI-related enzymes and decoding their roles in cellular processes at the molecular level.
HostingRepository	PRIDE
AnnounceDate	2025-06-25
AnnouncementXML	Submission_2025-06-25_06:16:25.733.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Rayman Tjokrodirijo
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2024-11-01 02:45:11	ID requested
⏵ 1	2025-06-25 06:16:26	announced

10.1002/CBIC.202500321;

submitter keyword: FUBI, Chemical biology,Activity-based probes, Ub-like protein, Post-translational modifications

Peter A. van Veelen
contact affiliation	Head Proteomics Group, Leiden University Medical Center, Center for Proteomics and Metabolomics, PO Box 9600, Postal zone P1-Q, 2300 RC Leiden, The Netherlands
contact email	P.A.van_Veelen@lumc.nl
lab head
Rayman Tjokrodirijo
contact affiliation	Leiden University Medical Center, Proteomics group
contact email	R.T.N.Tjokrodirijo@lumc.nl
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/2025/06/PXD057422

PRIDE project URI

• PRIDE
  1. PXD057422
     1. Label: PRIDE project
     2. Name: Developing Chemical Tools for a Systematic Exploration of the Ubiquitin-like Protein FUBI