PXD054642

PXD054642 is an original dataset announced via ProteomeXchange.

Title	A novel RNA binding protein YebC enhances translation of proline-rich amino acid stretches in bacteria
Description	The ribosome employs a set of highly conserved translation factors to efficiently synthesise proteins. Some translation factors interact with the ribosome in a transient manner and are thus challenging to identify. However, proteins involved in translation could be specifically identified by their interaction with ribosomal RNAs. In this study, we searched for novel RNA binding proteins in the pathogenic bacterium Streptococcus pyogenes. A combination of proteomics approaches identified several proteins of unknown function that interact with RNA. One of these, a universally conserved protein YebC, was shown to transiently interact with 23S rRNA near the peptidyl-transferase. The deletion of YebC moderately affected physiology and virulence of S. pyogenes. Site-directed mutagenesis in S. pyogenes identified several amino acids essential for YebC activity. We performed ribosome profiling and detected increased pausing at proline-rich amino acid stretches in the absence of functional YebC. Further results obtained with in vivo reporters and in vitro translation system suggest that YebC can alleviate ribosome stalling at polyproline stretches. In conclusion, our study shows that YebC is a novel translation factor required for efficient translation of proteins with proline-rich motifs.
HostingRepository	PRIDE
AnnounceDate	2025-07-14
AnnouncementXML	Submission_2025-07-13_17:19:50.247.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kathirvel Alagesan
SpeciesList	scientific name: Streptococcus pyogenes M1 GAS; NCBI TaxID: 160490;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos; Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2024-08-06 07:52:53	ID requested
⏵ 1	2025-07-13 17:19:51	announced

10.1038/s41467-025-60687-4;

Ignatov D, Shanmuganathan V, Ahmed-Begrich R, Alagesan K, Hahnke K, Wang C, Krause K, Cornejo FA, Funke K, Erhardt M, Frese CK, Charpentier E, RNA-binding protein YebC enhances translation of proline-rich amino acid stretches in bacteria. Nat Commun, 16(1):6262(2025) [pubmed]

submitter keyword: Streptococcus pyogenes, RNA binding protein, RNA, RNA-Protein XL

Emmanuelle Charpentier
contact affiliation	Max Planck Unit for the Science of Pathogens, D-10117 Berlin, Germany Institute for Biology, Humboldt University, D-10115 Berlin, Germany
contact email	research-charpentier@mpusp.mpg.de
lab head
Kathirvel Alagesan
contact affiliation	Max Planck Unit for the Science of Pathogens
contact email	alagesan@mpusp.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/2025/07/PXD054642

PRIDE project URI

• PRIDE
  1. PXD054642
     1. Label: PRIDE project
     2. Name: A novel RNA binding protein YebC enhances translation of proline-rich amino acid stretches in bacteria