PXD064219

PXD064219 is an original dataset announced via ProteomeXchange.

Title	Cleavable Photo-Crosslinker Enables sFFP-Driven Strategy for Mapping HSP90β Oligomer Structure
Description	Crosslinking technology is a pivotal tool for resolving dynamic protein interaction networks. While traditional chemical crosslinkers face limitations in sensitivity, reaction kinetics, and in situ activation, cleavable and photo-crosslinkers have emerged as alternatives. However, their complex spectral signatures remain underutilized in database search algorithms. Here, we mechanistically demonstrated the latent cleavable properties of diazirine-based photo-crosslinkers through tandem mass spectrometry. By leveraging side-chain fragmentation fingerprint (sFFP) under a target-decoy strategy, we reduced the false discovery rate (FDR) of BSA crosslinking data from 12% to 2.7%. To synergize cleavable and photo-reactive advantages, we rationally engineered the first dual-cleavable photo-crosslinker BDG, featuring two sFFP signatures (sc/sz and sc'/sz') and rapid in situ photo-activation. Validated by plink3 Score and sFFP analysis, BDG enabled the first photochemical reconstruction of HSP90β oligomer conformations, providing structural insights into chaperone-mediated stress protection. This work establishes a methodological paradigm for probing dynamic protein interactions.
HostingRepository	PRIDE
AnnounceDate	2026-04-09
AnnouncementXML	Submission_2026-04-09_07:19:17.857.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	yida jiang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606; scientific name: Bos taurus (Bovine); NCBI TaxID: NEWT:9913;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2025-05-22 21:53:10	ID requested
⏵ 1	2026-04-09 07:19:18	announced

Dataset with its publication pending

submitter keyword: photo-cross-link, HSP90, RandomForest,cleavable cross-linker

Chun Tang
contact affiliation	Beijing National Laboratory for Molecular Sciences, College of Chemistry and Molecular Engineering, Peking University, Beijing, China
contact email	tang_chun@pku.edu.cn
lab head
yida jiang
contact affiliation	Beijing National Laboratory for Molecular Sciences, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
contact email	jiangyida@pku.edu.cn
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD064219
     1. Label: PRIDE project
     2. Name: Cleavable Photo-Crosslinker Enables sFFP-Driven Strategy for Mapping HSP90β Oligomer Structure