PXD065857-1

PXD065857 is an original dataset announced via ProteomeXchange.

Title	VAPA at the inner nuclear membrane affects nuclear lamins and nuclear morphology - RAPIDS12 experiment
Description	Vesicle-associated membrane protein–associated protein A (VAPA) is a protein of the endoplasmic reticulum (ER) and a component of several membrane contact sites (MCSs). We now show that VAPA also localizes to the inner nuclear membrane (INM), in close proximity to nuclear lamins, INM-proteins and nucleoporins. Using our proteomics approach RAPIDS (rapamycin- and APEX-dependent identification of proteins by SILAC), we identified several nuclear proximity partners of VAPA, including emerin, different LAP2 isoforms, lamin A/C and Nup153. Depletion of VAPA in various cellular systems resulted in reduced nuclear lamin levels and aberrant nuclear morphology including the formation of membrane invaginations and tunnels. Furthermore, histone acetylation levels were altered. Our data suggest that VAPA has distinct nuclear functions, in addition to its established role as an ER-organizer.
HostingRepository	PRIDE
AnnounceDate	2025-12-22
AnnouncementXML	Submission_2025-12-22_03:24:32.019.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Christof Lenz
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2025-07-07 10:55:11	ID requested
⏵ 1	2025-12-22 03:24:32	announced

10.1242/JCS.264298;

submitter keyword: VAPA, nuclear envelope, endoplasmic reticulum, nuclear tunnels, nucleus

Christof Lenz
contact affiliation	Core Facility Proteomics, Department of Clinical Chemistry, University Medical Center Göttingen, Germany
contact email	christof.lenz@med.uni-goettingen.de
lab head
Christof Lenz
contact affiliation	Max Planck Institute for Biophysical Chemistry
contact email	christof.lenz@mpibpc.mpg.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/2025/12/PXD065857

PRIDE project URI

• PRIDE
  1. PXD065857
     1. Label: PRIDE project
     2. Name: VAPA at the inner nuclear membrane affects nuclear lamins and nuclear morphology - RAPIDS12 experiment