PXD010075

PXD010075 is an original dataset announced via ProteomeXchange.

Title	Protein interactome of small RNA fragments: identification and functional implications
Description	Populations of small eukaryotic RNAs, in addition to relatively well recognized molecules (such as miRNAs or siRNAs), also contain fragments derived from all classes of constitutively expressed non-coding RNAs. It has been recently demonstrated that the formation and accumulation of RNA fragments (RFs) is cell-/tissue-specific and depends on internal and external stimuli. Unfortunately, the mechanisms underlying RF biogenesis and function remain unclear. To better understand them, we employed RNA pull-down and mass spectrometry methods to characterize the interaction networks of seven RFs originating from tRNA, snoRNA and snRNA. In addition, we performed an in silico screen of the selected RFs against publicly available cross-linking and immunoprecipitation datasets. We determined that the RF interactome comprises a large number of proteins, which were generally different from those that interact with their parental full length RNAs. Proteins that were differentially bound by the RFs were involved in mRNA splicing, tRNA processing, DNA recombination/replication, protein biosynthesis and carbocyclic acid metabolism. Our data suggest that RFs can be endogenous aptamer-like molecules and potential players in emerging RNA-protein regulatory networks.
HostingRepository	PRIDE
AnnounceDate	2018-10-24
AnnouncementXML	Submission_2018-10-24_07:36:53.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ireneusz Stolarek
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-06-08 07:13:04	ID requested
⏵ 1	2018-10-24 07:36:54	announced

Jackowiak P, Lis A, Luczak M, Stolarek I, Figlerowicz M, Functional characterization of RNA fragments using high-throughput interactome screening. J Proteomics, 193():173-183(2019) [pubmed]

curator keyword: Biological

submitter keyword: RNA fragments, protein interactome, RNA-protein interaction

Marek Figlerowicz
contact affiliation	Institute of Bioorganic Chemistry Polish Academy of Sciences, Department of Molecular and Systems Biology, Poznan, Poland
contact email	marekf@ibch.man.poznan.pl
lab head
Ireneusz Stolarek
contact affiliation	Institute of Bioorganic Chemistry PAS
contact email	stolarek.ir@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD010075
     1. Label: PRIDE project
     2. Name: Protein interactome of small RNA fragments: identification and functional implications