PXD023383

PXD023383 is an original dataset announced via ProteomeXchange.

Title	Effect of Nop53 depletion on the compositional changes during pre-60S maturation
Description	The eukaryotic ribosome biogenesis is a highly orchestrated multistep process that starts at the nucleolus with the transcription of pre-rRNAs 5S and 35S. The latter comprises the mature 18S, 5.8S and 25S rRNAs separated by internal transcribed spacers (ITS1 and ITS2) and externally flanked by the 5’ETS and 3’ETS. The 35S pre-rRNA undergoes several co- and post-transcriptional processing events, which will enable the pre-60S and pre-40S particles to take independent maturation routes. Hundreds of assembly factors (AF) are required, being recruited and released hierarchically, for the proper folding of the rRNAs and correct positioning of the ribosomal proteins. One of the most intricate events that have recently been described is the removal of the ITS2-containing structure called pre-60S foot, which happens in a step-wise manner. Nop53 is an essential 60S AF that binds close to the ITS2 and plays a fundamental role in recruiting the RNA exosome for the 7S pre-rRNA processing, thereby dismantling the foot structure. Here we characterize the impact of Nop53 binding to the pre-60S on the compositional changes that happen during 60S assembly. For this purpose, preribosomes were affinity-purified with TAP-tagged 60S AFs (Nop7, Erb1, Rsa4, Arx1, Nmd3, Yvh1, and Lsg1) representative of different maturation stages both in the presence and absence of Nop53. Nop7 particles were also coimmunoprecipitated in the presence of Nop53 mutants incapable of recruiting the exosome (Nop53∆1-71, Nop53∆48-98) to compare with Nop53 depletion. The isolated preribosomes were analyzed by label-free MS/MS-based quantitative proteomics, revealing early and late-stage specific effects of Nop53 depletion.
HostingRepository	PRIDE
AnnounceDate	2021-09-09
AnnouncementXML	Submission_2021-09-09_15:53:17.781.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Julia Cunha
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2021-01-04 03:11:02	ID requested
⏵ 1	2021-09-09 15:53:18	announced

Bagatelli FFM, de Luna Vitorino FN, da Cunha JPC, Oliveira CC, The ribosome assembly factor Nop53 has a structural role in the formation of nuclear pre-60S intermediates, affecting late maturation events. Nucleic Acids Res, 49(12):7053-7074(2021) [pubmed]

submitter keyword: Nop53, pre-60S, eukaryotic ribosome biogenesis, S. cerevisiae

Carla Columbano Oliveira
contact affiliation	Laboratory of Post-Transcriptional Control of Gene Expression, Department of Biochemistry, Institute of Chemistry, University of São Paulo, 05508-000 São Paulo, SP, Brazil
contact email	ccoliv@iq.usp.br
lab head
Julia Cunha
contact affiliation	LCC
contact email	julia.cunha@butantan.gov.br
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD023383
     1. Label: PRIDE project
     2. Name: Effect of Nop53 depletion on the compositional changes during pre-60S maturation