PXD056916
PXD056916 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | A single amino acid in the Salmonella effector SarA/SteE triggers supraphysiological activation of STAT3 for anti-inflammatory target gene expression |
| Description | Immunoprecipitates were adjusted to 5% (w/v) SDS and 50 mM TEAB, pH 8.5, reduced and alkylated, and digested with 1 microgram of wild-type alpha lytic protease using an S-trap micro device (Protifi). Eluents were lyophilized and reconstituted in twenty microlites of 0.1% formic acid, and 7.5 microliters of each sample was loaded onto Evotip Pure disposable C18 trap columns and analyzed using an Evosep One LC interfaced to an Thermofisher Orbitrap Astral MS. Each sample was analyzed twice using a 30 sample-per-day method, and MS/MS used data-dependent (DDA) and data-independent acquisition (DIA). Database searching using a Uniprot human database (downloaded on 08/17/24) appended with transgenes and common contaminants (20,472 total entries) was performed with Spectronaut 19.2 using the Pulsar search engine with semispecific WALP cleavage specificity (cleavage C-terminal to T,A,S or V with non-specific cleavage on either C- or N-terminus) and variable phosphorylation on S/T/Y. The DIA acquisition was used for identification and quantification of peptide precursors and protein groups at a 1% false discovery rate. Local normalization was applied, and protein group quantities were determined using the MaxLFQ algorithm. Phosphorylation site localization used a probability cut-off of 0.75. |
| HostingRepository | MassIVE |
| AnnounceDate | 2025-03-06 |
| AnnouncementXML | Submission_2025-03-06_08:22:25.530.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Matt Foster |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | Carbamidomethyl; Phospho |
| Instrument | Orbitrap Astral |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2024-10-17 14:09:04 | ID requested | |
| ⏵ 1 | 2025-03-06 08:22:26 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: alpha lytic protease, phosphotyrosine, DatasetType:Proteomics |
Contact List
| Dennis C. Ko | |
|---|---|
| contact affiliation | Duke University |
| contact email | dennis.ko@duke.edu |
| lab head | |
| Matt Foster | |
| contact affiliation | Duke University |
| contact email | mwfoster@duke.edu |
| dataset submitter | |
Full Dataset Link List
| MassIVE dataset URI |
| 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://massive.ucsd.edu/v08/MSV000096120/ |
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