PXD042620-1

PXD042620 is an original dataset announced via ProteomeXchange.

Title	Identification of host PDZ-based interactions with SARS-CoV-2 E protein in human monocytes
Description	PDZ (Post-synaptic density, PSD-95)/ Disc large, Dlg/ Zonula occludens, ZO-1) proteins are central in the assembly of multiprotein signalling complexes that are formed in distinctive, specialized cell regions. In these complexes different signals are orchestrated and traduced into quick and efficient responses controlling cell polarization and cell communication. Viral pathogens target host PDZ proteins by expressing viral proteins containing a PDZ binding motif (PBM). SARS-CoV-1 and -2 harbour the protein E, a viroporin with a conserved PBM in its carboxyl-terminal region. SARS-CoV-1 E protein is a pathogenicity factor that in epithelia interacts with the PDZ protein PALS1, which promote disruption of cell junctions. SARS-CoV-2 infects epithelia, but also cells from the innate immune response, including monocytes, dendritic cells, and alveolar macrophages. Identification of targets of SARS-CoV-2 E protein in immune cells might offer valuable clues to understand how SARS-CoV-2 alters immune response. Here we generated a SARS-CoV-2 E protein fused to a GFP-tag at the amino terminal. This recombinant protein was used as bait to identify associated proteins in THP-1 cells, a human monocytic cell line that can be differentiated to macrophages and dendritic cells. Analysis of the GFP-E protein interactome provided 372 proteins that fall into different functional groups. Only eight of these proteins harbor PDZ domains, including the cell polarity protein ZO-2 and the chemoattractant IL-16. Syntenin, a PDZ protein previously identified as interactor of SARS-CoV-1 E protein in epithelia, was also found in our analysis. Little is known about these PDZ proteins in immune cells, so we addressed their expression in monocytes and along the differentiation towards macrophages and dendritic cells. Our findings support the notion that viral targeting of PDZ proteins alters inflammatory response and highlight the importance of identifying the functions of PDZ proteins into maintenance of immune fitness.
HostingRepository	PRIDE
AnnounceDate	2023-10-24
AnnouncementXML	Submission_2023-10-24_13:05:12.129.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD042620
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	SergioCiordia
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Exploris 240

Revision	Datetime	Status	ChangeLog Entry
0	2023-06-01 09:05:09	ID requested
⏵ 1	2023-10-24 13:05:13	announced
2	2023-11-14 09:10:46	announced	2023-11-14: Updated project metadata.

Á, vila-Flores A, S, á, nchez-Cabez, ó, n JJ, Ochoa-Echeverr, í, a A, Checa AI, Rosas-Garc, í, a J, T, é, llez-Araiza M, Casado S, Li, é, bana R, Santos-Mendoza T, M, é, rida I, Identification of Host PDZ-Based Interactions with the SARS-CoV-2 E Protein in Human Monocytes. Int J Mol Sci, 24(16):(2023) [pubmed]

10.6019/PXD042620;

submitter keyword: viral targeting,SARS-CoV-2, macrophage, innate immune response, syntenin, ZO-2, PDZ, monocyte, IL-16, coronavirus, Envelope E protein

IsabelMérida
contact affiliation	Centro Nacional de Biotecnología CNB/CSIC
contact email	imerida@cnb.csic.es
lab head
SergioCiordia
contact affiliation	Spanish National Center for Biotechnology
contact email	sciordia@cnb.csic.es
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/2023/10/PXD042620

PRIDE project URI

• PRIDE
  1. PXD042620
     1. Label: PRIDE project
     2. Name: Identification of host PDZ-based interactions with SARS-CoV-2 E protein in human monocytes