PXD023929
PXD023929 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Mature proteins of LAG-3 with or without mutations were digested with chymotrypsin followed by data-dependent LC-MS/MS analysis |
Description | The FLAG-tagged soluble monomeric proteins of LAG-3-WT, LAG-3-V20A, and LAG-3-L14Q/V20A were immunoprecipitated from culture supernatants of Plat-E cells transfected with the corresponding plasmid vectors using ANTI-FLAG M2 Magnetic Beads. Proteins on the beads were digested with chymotrypsin (Roche) followed by reduction and alkylation. The peptides were subjected to data-dependent LC-MS/MS analysis using an EASY-nLC 1200 UHPLC connected to a Q Exactive Plus mass spectrometer through a nanoelectrospray ion source (Thermo Fisher Scientific). Raw data were directly analyzed against the SwissProt database restricted to H. sapiens supplemented with predicted amino acid sequences of LAG-3 with or without mutations starting from A18 to L29 using Proteome Discoverer version 2.3 (Thermo Fisher Scientific) with Sequest HT search engine. The search parameters were as follows: (a) chymotrypsin as an enzyme with up to two missed cleavages; (b) precursor mass tolerance of 10 ppm; (c) fragment mass tolerance of 0.02 Da; (d) carbamidomethylation of cysteine as a fixed modification; and (e) acetylation of protein N-terminus and oxidation of methionine as variable modifications. Peptides were filtered at a false discovery rate of 1% using the percolator node. |
HostingRepository | jPOST |
AnnounceDate | 2022-04-11 |
AnnouncementXML | Submission_2022-09-18_03:35:55.243.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Hidetaka Kosako |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | S-carboxamidomethyl-L-cysteine; alpha-amino acetylated residue; L-methionine sulfoxide |
Instrument | instrument |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2021-02-02 01:13:30 | ID requested | |
1 | 2022-04-10 08:00:04 | announced | |
2 | 2022-04-19 23:00:46 | announced | 2022-04-20: Updated PubMed. |
⏵ 3 | 2022-09-18 03:35:56 | announced | 2022-09-18: Updated FTP location. |
Publication List
Maruhashi T, Sugiura D, Okazaki IM, Shimizu K, Maeda TK, Ikubo J, Yoshikawa H, Maenaka K, Ishimaru N, Kosako H, Takemoto T, Okazaki T, cell function and suppresses autoimmunity and anti-cancer immunity. Immunity, 55(5):912-924.e8(2022) [pubmed] |
Keyword List
submitter keyword: DDA, mature LAG-3, N-terminal peptides |
Contact List
Hidetaka Kosako | |
---|---|
lab head | |
Hidetaka Kosako | |
contact affiliation | Tokushima University |
dataset submitter |
Full Dataset Link List
jPOST 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://ftp.jpostdb.org/JPST001076/ |