PXD034854

PXD034854 is an original dataset announced via ProteomeXchange.

Title	Charecterization of RBM42 interacting proteins in HCT116 cells with and without DNA damage
Description	RNA binding motif protein 42 (RBM42) is an understudied gene mapped to 19q13.12 region and codes for a protein that consists of 480 amino acids, containing one RNA recognition motif (RRM) at its C-terminal region. We mapped the RBM42 interactome using ascorbate peroxidase (APEX2)-based proximity labelling combined with mass spectrometry. We utilized CRISPR-Cas9 methodology for biallelic knock-in APEX2 at the C-terminus of the endogenous RBM42 coding sequence (CDS) and established an HCT116 cell line expressing RBM42-APEX2 fusion. RBM42 interactome mapping was performed by using Control and and HCT116 expressing RBM42-APEX2 cells that were treated with DMSO or Etoposide (VP-16) that induce DNA repair and incubated in media containing biotin phenol, followed by H2O2 treatment, to activate APEX2 peroxidase activity. Pathway enrichment analysis revealed that the majority of proteins that appeared in proximity to RBM42 are implicated in mRNA splicing and processing. Furthermore, we observed a significant enrichment of proteins involved in cell cycle checkpoints and regulation, further highlighting the role of RBM42 in DNA damage response. Together, RBM42 interactome analysis substantiates its function as a splicing regulator and implicates it in additional cellular pathways related to mRNA metabolism and DNA damage response.
HostingRepository	PRIDE
AnnounceDate	2023-11-22
AnnouncementXML	Submission_2023-11-22_11:18:43.790.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Oded Kleifeld
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2022-06-22 15:14:36	ID requested
⏵ 1	2023-11-22 11:18:44	announced

10.1038/S41467-023-43495-6;

submitter keyword: APEX2, Human,RBM42

Nabieh Ayoub
contact affiliation	Head of Laboratory of DNA Repair & Cancer Faculty of Biology, Technion Israel Institute of Technology Haifa, 3200003, Israel
contact email	ayoubn@technion.ac.il
lab head
Oded Kleifeld
contact affiliation	Technion
contact email	okleifeld@technion.ac.il
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD034854
     1. Label: PRIDE project
     2. Name: Charecterization of RBM42 interacting proteins in HCT116 cells with and without DNA damage