PXD003074-4

PXD003074 is an original dataset announced via ProteomeXchange.

Title	Sulfolobus islandicus top-down LC-MSMS
Description	Protein posttranslational methylation and acetylations have been reported to occur in archaea, including members of the genus Sulfolobus, but have not been characterized on a proteome-wide scale. Sulfolobus chromatin proteins are known to be methylated and acetylated on lysine side chains, resembling eukaryotic histones in this respect. We utilized bottom-up and top-down proteomic approaches to perform a global and deep methylation study in the hyperthermoacidophylic archaeon S. islandicus with particular interest in chromatin proteins. Without specific enrichment, 731 protein were found by bottom-up proteomic analysis. The methylation sites on >400 proteins were monitored throughout 3 cell culture growth stages: early exponential, late exponential and stationary. (The previously described aKMT4 is found to be a plausible methyltransferase responsible for the massive methylation.) The proteome-wide top-down study/approach revealed 3778 proteoforms of 681 proteins, including 292 methylated proteoforms, of which 85 were comprehensively characterized by high-resolution MS/MS. Methylated proteoforms of the five chromatin proteins were characterized in detail by combination of bottom-up and top-down data showing the differences between the closely related Sul7d proteins. The two Alba chromatin proteins are, for the first time, reported to be methylated in this work. Alba1 protein is shown to be mono-, di- and trimethylated at the lysine-16 side chain. Stage-wise top-down analysis shows that the relative abundance of the methylated proteoforms versus non-methylated ones significantly grows/increases for Alba1 and Cren7 chromatin proteins throughout the cell growth. These findings highlight the ubiquitous lysine methylation throughout the S. islandicus proteome and singificantly enrich our knowledge related aboutarchaeal chromatin proteins.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:26:12.368.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Egor Vorontsov
SpeciesList	scientific name: Sulfolobus islandicus LAL14/1; NCBI TaxID: 1241935;
ModificationList	monomethylated residue; acetylated residue
Instrument	Orbitrap Fusion ETD

Revision	Datetime	Status	ChangeLog Entry
0	2015-10-19 01:35:40	ID requested
1	2016-09-13 03:58:29	announced
2	2017-06-21 00:31:09	announced	Updated project metadata.
3	2017-10-24 01:15:26	announced	Updated project metadata.
⏵ 4	2024-10-22 04:26:20	announced	2024-10-22: Updated project metadata.

Vorontsov EA, Rensen E, Prangishvili D, Krupovic M, Chamot-Rooke J, Abundant Lysine Methylation and N-Terminal Acetylation in Sulfolobus islandicus Revealed by Bottom-Up and Top-Down Proteomics. Mol Cell Proteomics, 15(11):3388-3404(2016) [pubmed]

submitter keyword: Archaea, Top-down,LC-MSMS, Orbitrap Fusion

Julia Chamot-Rooke
contact affiliation	Unité de Spectrométrie de Masse Structurale et Protéomique, Institut Pasteur, 28 rue du Dr. Roux, 75015 Paris, France Tel: + 33 1 40 61 38 59 julia.chamot-rooke@pasteur.fr
contact email	julia.chamot-rooke@pasteur.fr
lab head
Egor Vorontsov
contact affiliation	Proteomics Core Facility, Sahlgrenska Academy, University of Gothenburg, Gothenburg, Sweden
contact email	yegor.msu@gmail.com
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/2016/09/PXD003074

PRIDE project URI

• PRIDE
  1. PXD003074
     1. Label: PRIDE project
     2. Name: Sulfolobus islandicus top-down LC-MSMS