PXD050767

PXD050767 is an original dataset announced via ProteomeXchange.

Title	Non-canonical RNA-binding of the histone lysine demethylase KDM5 through interactions with G-quadruplex sequences
Description	RNA-binding proteins are important regulators of RNA biogenesis and function, and recent work shows that chromatin- and RNA-binding proteins can have regulatory roles in transcription. Several approaches have been developed to predict RNA-binding proteins and to identify them experimentally at large scale, including binding to structural elements as G-quadruplexes. Here, we show that the histone lysine demethylase protein KDM5 can bind to RNA through interaction with G-quadruplexes with high affinity despite neither being categorized as an RNA-binding protein nor identified as a G-quadruplex binding protein across numerous experimental large-scale and computational studies. In addition to characterizing the KDM5 G-quadruplex interaction we show that RNA is directly involved in the formation of KDM5-containing protein complexes. Computational predictions and comparison to other ARID domain containing proteins suggest that the ARID domain is directly interacting with both DNA and RNA across several proteins. Our work highlights that non-canonical aspects of RNA-binding proteins are present, and that G-quadruplex RNA-binding could provide a regulatory mechanism for chromatin-binding proteins with impact on transcription through linking protein complexes within the cell.
HostingRepository	PRIDE
AnnounceDate	2024-04-11
AnnouncementXML	Submission_2024-04-11_00:15:26.983.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	David Meierhofer
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2024-03-19 07:06:58	ID requested
⏵ 1	2024-04-11 00:15:27	announced

Dataset with its publication pending

submitter keyword: histone lysine demethylase KDM5

G-quadruplex

Non-canonical RNA-binding

Ulf Andersson
contact affiliation	Aarhus University Institute of Molecular Biology and Genetics Universitetsbyen 81 8000 Aarhus Denmark
contact email	ulf.orom@mbg.au.dk
lab head
David Meierhofer
contact affiliation	Mass Spectrometry Facility MPIMG
contact email	meierhof@molgen.mpg.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/2024/04/PXD050767

PRIDE project URI

• PRIDE
  1. PXD050767
     1. Label: PRIDE project
     2. Name: Non-canonical RNA-binding of the histone lysine demethylase KDM5 through interactions with G-quadruplex sequences