PXD047422-1

PXD047422 is an original dataset announced via ProteomeXchange.

Title	Structural Host Virus Interactome Profiling of Intact Infected Cells
Description	Virus-host protein-protein interactions (PPIs) are fundamental to viral infections, yet high-resolution identification within the native context of intact infected cells has remained an unsolved challenge. Here, we developed structural host-virus interactome profiling (SHVIP) that combines in situ crosslinking mass spectrometry with the enrichment of newly synthesized viral proteins from infected cells. SHVIP captures PPIs across intracellular compartments and at the intact host endomembrane system. It resolves PPIs to the protein domain level and seamlessly integrates with AlphaFold-based structural modeling, facilitating detailed predictions of PPI sites within structured and intrinsically disordered regions. We show that SHVIP captures parts of the virus-host PPI space that are elusive to traditional interaction proteomics approaches. By selectively disrupting several newly identified virus-host PPIs, we confirm SHVIP’s ability to uncover genuine virus-host PPIs in the intact complex environment of infected cells.
HostingRepository	PRIDE
AnnounceDate	2025-06-13
AnnouncementXML	Submission_2025-06-13_03:08:59.071.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Boris Bogdanow
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Human alphaherpesvirus 1; NCBI TaxID: 10298;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos; Orbitrap Fusion; LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2023-11-30 16:24:43	ID requested
⏵ 1	2025-06-13 03:08:59	announced

Dataset with its publication pending

submitter keyword: virus, PPI, HSV-1, XL-MS,SHVIP, herpes

Fan Liu
contact affiliation	Leibniz-Institute for Molecular Pharmacology
contact email	fliu@fmp-berlin.de
lab head
Boris Bogdanow
contact affiliation	Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP)
contact email	bogdanow@fmp-berlin.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/2025/06/PXD047422

PRIDE project URI

• PRIDE
  1. PXD047422
     1. Label: PRIDE project
     2. Name: Structural Host Virus Interactome Profiling of Intact Infected Cells