PXD079457

PXD079457 is an original dataset announced via ProteomeXchange.

Title	Diverse bacterial pattern recognition receptors sense the core phage proteome
Description	Recognition of foreign molecules inside cells is critical for immunity across all domains of life. Proteins of the STAND NTPase superfamily, including eukaryotic NOD-like receptors (NLRs), play a central role in this process. In bacteria and archaea, although several STAND families sense phage proteins, their functional diversity remains largely unexplored. We conducted a systematic phylogenetic analysis of prokaryotic STAND NTPases and identified at least 90 structurally distinct families associated with antiviral defense. We first show that the uncharacterized Avs7 family recognizes the major capsid protein (MCP) of tailed phages. Three cryo-EM structures of Salmonella enterica Avs7 reveal an asymmetric, butterfly-shaped tetramer that assembles stepwise via large, MCP-induced conformational changes, incorporating bacterial elongation factor Tu (EF-Tu) as a structural component that enhances defense. Using genetic screens with a library of 687 phage genes, we further show that 13 additional STAND families sense 13 conserved phage proteins, encompassing most of the core structural and replicative components of tailed phages. These include two distinct MCP-sensing families (Avs8 and Avs10) and 11 others (Avs11–21) recognizing the portal, portal adaptor, tail nozzle, head–tail connector, tail terminator, tail tube protein, tail assembly chaperone, tape measure protein, DNA polymerase, helicase/RecA-type ATPase, and single-stranded DNA annealing protein, respectively. Together, our findings highlight structure-based pattern recognition and host factor repurposing as fundamental strategies of bacterial immunity. This dataset contains the raw mass spectrometry file from the SeAvs7 pulldown proteomics experiment used in Extended Data Figure 2 of the accepted manuscript “Diverse bacterial pattern recognition receptors sense the conserved phage proteome.” This is a partial PRIDE submission.
HostingRepository	PRIDE
AnnounceDate	2026-06-10
AnnouncementXML	Submission_2026-06-09_20:51:40.961.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Junyi Chen
SpeciesList	scientific name: Salmonella enterica; NCBI TaxID: NEWT:28901; scientific name: Escherichia coli; NCBI TaxID: NEWT:562; scientific name: Escherichia phage T1; NCBI TaxID: NEWT:2492962;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Ascend

Revision	Datetime	Status	ChangeLog Entry
0	2026-06-09 07:43:52	ID requested
1	2026-06-09 20:39:10	announced
⏵ 2	2026-06-09 20:51:41	announced	2026-06-10: Updated project metadata.

Dataset with its publication pending

submitter keyword: SeAvs7

STAND NTPase

bacterial immunity

antiphage defense

phage major capsid protein

EF-Tu

affinity purification mass spectrometry

pulldown proteomics

TMTpro

Haopeng Xiao
contact affiliation	Department of Biochemistry Stanford Cancer Institute Stanford University Stanford, CA 94305, USA
contact email	hpxiao@stanford.edu
lab head
Junyi Chen
contact affiliation	Stanford University
contact email	jchen634@stanford.edu
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/2026/06/PXD079457

PRIDE project URI

• PRIDE
  1. PXD079457
     1. Label: PRIDE project
     2. Name: Diverse bacterial pattern recognition receptors sense the core phage proteome