PXD022903

PXD022903 is an original dataset announced via ProteomeXchange.

Title	Combined Peptide array screen and proximity labeling proteomics fine map C/EBPa protein interactions
Description	The pioneering transcription factor C/EBPα coordinates cell fate and cell differentiation. The structure of C/EBPα comprises intrinsically disordered regions, multiple short linear motifs, and extensive post-translational side chain modifications (PTM), reflecting its modularity and functional plasticity. Here, we combined peptide matrix screening with biotin ligase proximity labeling proteomics to generate a PTM-dependent comprehensive protein interaction map of C/EBPα in myeloid cells. We found that protein interactions hotspots coincide with homologous conserved regions of the C/EBP family. PTMs alter the interaction spectrum of multi-valent C/EBP-motifs to configure a dynamic C/EBPα hub that selects co-regulatory components such as of the BAF/SWI-SNF complexes in an C/EBPα arginine-methylation and isoform state specific fashion. Our data suggest that the functional plasticity of C/EBPs is based on promiscuous interactions with protein machineries involved in gene regulation, epigenetics, genome organization, DNA replication, RNA processing and transport. The experimental strategy opens new avenues to systematically examine the PTM-dependent interactome of intrinsically disordered proteins as a basis to explore their multi-modal functions.
HostingRepository	PRIDE
AnnounceDate	2021-07-12
AnnouncementXML	Submission_2021-07-12_10:34:45.438.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Evelyn Ramberger
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	biotinylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF; Q Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2020-12-04 00:31:50	ID requested
⏵ 1	2021-07-12 10:34:46	announced

Ramberger E, Sapozhnikova V, Kowenz-Leutz E, Zimmermann K, Nicot N, Nazarov PV, Perez-Hernandez D, Reimer U, Mertins P, Dittmar G, Leutz A, . iScience, 24(6):102686(2021) [pubmed]

submitter keyword: peptide pulldowns, PTM, BioID, CEBPA

Philipp Mertins
contact affiliation	Head Proteomics Platform, MDC Berlin
contact email	Philipp.Mertins@mdc-berlin.de
lab head
Evelyn Ramberger
contact affiliation	Max Delbrück Center for Molecular Medicine, Berlin
contact email	evelyn.ramberger@mdc-berlin.de
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/2021/07/PXD022903

PRIDE project URI

• PRIDE
  1. PXD022903
     1. Label: PRIDE project
     2. Name: Combined Peptide array screen and proximity labeling proteomics fine map C/EBPa protein interactions