PXD078573-1

PXD078573 is an original dataset announced via ProteomeXchange.

Title	U1 snRNP and RNA polymerase II interaction is predominantly mediated by Prp40 rather than U1-70K in yeast
Description	Transcription and splicing are coupled both temporally and physically. A previous cryo-EM structure of the human U1 snRNP and RNA polymerase pol II complex has shown that U1 snRNP uses predominantly the RRM domain of U1-70K to directly interact with the RPB2 subunit of pol II. However, residues on U1-70K involved in the interaction with pol II are not conserved in yeast U1-70K, raising the question whether yeast U1 snRNP interacts with pol II in a similar manner. We found that yeast pol II associates with both U1 and U2 snRNPs, but U1-70K makes a minimal contribution to U1 snRNP’s interaction with pol II. On the other hand, multiple domains of yeast Prp40 interact with pol II and the removal of the C-terminal domain (CTD) of pol II does not affect this interaction. Although yeast Prp40 is stably associated with U1 snRNP, its human homologs, PRPF40a and PRPF40b, are alternative splicing factors that are not integral components of U1 snRNP. This shift of function of Prp40 homologs may have led to the evolution of U1-70K to be the main interactor with pol II in the human system.
HostingRepository	PRIDE
AnnounceDate	2026-05-20
AnnouncementXML	Submission_2026-05-19_18:47:38.794.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Aaron Issaian
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: NEWT:4932;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	timsTOF SCP

Revision	Datetime	Status	ChangeLog Entry
0	2026-05-19 18:14:02	ID requested
⏵ 1	2026-05-19 18:47:39	announced

10.1101/2025.08.28.672894;

Li X, Li J, Srivastava P, Shi S, Issaian A, Bevers S, Wagner ME, D'Alessandro A, Zhao R, U1 snRNP and RNA polymerase II interaction is predominantly mediated by Prp40 rather than U1-70K in yeast. bioRxiv, ():(2025) [pubmed]

submitter keyword: Yeast, spliceosome, splicing, Pol II, snRNP, Prp40

Rui, Zhao
contact affiliation	Biochemistry and Molecular Genetics, University of Colorado Anschutz Medical Campus, USA
contact email	RUI.ZHAO@CUANSCHUTZ.EDU
lab head
Aaron Issaian
contact affiliation	University of Colorado Anschutz Medical Campus
contact email	aaron.issaian@cuanschutz.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD078573
     1. Label: PRIDE project
     2. Name: U1 snRNP and RNA polymerase II interaction is predominantly mediated by Prp40 rather than U1-70K in yeast