PXD021422

PXD021422 is an original dataset announced via ProteomeXchange.

Title	Systematic Identification of Protein Phosphorylation-Mediated Interactions
Description	Protein phosphorylation is a key regulatory mechanism involved in nearly every eukaryotic cellular process. Increasingly sensitive mass spectrometry approaches have identified hundreds of thousands of phosphorylation sites but the functions of a vast majority of these sites remain unknown, with less than 5% of sites currently assigned a function. To increase our understanding of functional protein phosphorylation we developed an approach for identifying the phosphorylation dependence of protein assemblies in a systematic manner. A combination of non-specific protein phosphatase treatment, size-exclusion chromatography, and mass spectrometry allowed us to identify changes in protein interactions after the removal of phosphates. With this approach we were able to identify 316 proteins involved in phosphorylation-sensitive interactions. We recovered known phosphorylation-dependent interactors such as the FACT complex and spliceosome, as well as identified novel interactions such as the tripeptidyl peptidase TPP2 and the supraspliceosome component ZRANB2. More generally, we find phosphorylation-dependent interactors to be strongly enriched for RNA-binding proteins, providing new insight into the role of phosphorylation in RNA binding. By searching directly for phosphorylated amino acid residues, we identified the likely regulatory phosphosites on ZRANB2 and FACT complex subunit SSRP1. This study provides both a method and resource for obtaining a better understanding of the role of phosphorylation in native macromolecular assemblies.
HostingRepository	PRIDE
AnnounceDate	2020-09-22
AnnouncementXML	Submission_2021-01-24_22:34:58.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD021422
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Brendan Floyd
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos; Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2020-09-11 00:19:51	ID requested
1	2020-09-22 01:07:52	announced
⏵ 2	2021-01-24 22:34:58	announced	2021-01-25: Updated publication reference for PubMed record(s): 33476154.

Floyd BM, Drew K, Marcotte EM, Systematic Identification of Protein Phosphorylation-Mediated Interactions. J Proteome Res, 20(2):1359-1370(2021) [pubmed]

submitter keyword: Human, Shotgun, SEC, Complexes

Edward Marcotte
contact affiliation	The University of Texas at Austin
contact email	marcotte@austin.utexas.edu
lab head
Brendan Floyd
contact affiliation	University of Texas at Austin
contact email	bmfloyd@utexas.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD021422
     1. Label: PRIDE project
     2. Name: Systematic Identification of Protein Phosphorylation-Mediated Interactions