YSH1 cleavage polyadenylation factor subunit YSH1 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: YSH1
Official Full Name: cleavage polyadenylation factor subunit YSH1
Primary source: SGD:S000004267
Locus tag: YLR277C
See related: AllianceGenome:SGD:S000004267; FungiDB:YLR277C; VEuPathDB:YLR277C
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: BRR5
Summary: Enables RNA endonuclease activity. Involved in RNA metabolic process. Part of mRNA cleavage and polyadenylation specificity factor complex. Orthologous to human CPSF3 (cleavage and polyadenylation specific factor 3). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See YSH1 in Genome Data Viewer

Location:: chromosome: XII

Exon count:: 1

Sequence:: Chromosome: XII; NC_001144.5 (697156..699495, complement)

Chromosome XII - NC_001144.5 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001144.5

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Determine the structure of Ysh1 bound to Mpe1 and the arrangement of subunits within CPFcore. Data suggest that the active mRNA 3' end processing machinery is a dynamic assembly that is licensed to cleave only when all protein factors come together at the polyadenylation site.
Title: Activation of the Endonuclease that Defines mRNA 3' Ends Requires Incorporation into an 8-Subunit Core Cleavage and Polyadenylation Factor Complex.
Findings suggest that the role of Ipa1 in termination is mediated through interaction with Ysh1, since Ipa1 mutation leads to decrease in Ysh1 and poor recruitment of the C/P complex to a transcribed gene.
Title: Ipa1 Is an RNA Polymerase II Elongation Factor that Facilitates Termination by Maintaining Levels of the Poly(A) Site Endonuclease Ysh1.
These observations suggest that Ysh1p has multiple roles in RNA synthesis and processing.
Title: The role of the putative 3' end processing endonuclease Ysh1p in mRNA and snoRNA synthesis.
The C-terminal domain of Brr5 lies outside of beta-lactamase homology, and its function has not been elucidated. This region of Brr5 is necessary for cell viability and mRNA 3'-end processing.
Title: The role of the Brr5/Ysh1 C-terminal domain and its homolog Syc1 in mRNA 3'-end processing in Saccharomyces cerevisiae.

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Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables 5'-3' RNA exonuclease activity	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA endonuclease activity	IBA Inferred from Biological aspect of Ancestor more info
enables RNA endonuclease activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables endonuclease activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	RCA inferred from Reviewed Computational Analysis more info	PubMed

Process	Evidence Code	Pubs
involved_in RNA processing	IEA Inferred from Electronic Annotation more info
involved_in RNA splicing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in mRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in sno(s)RNA 3'-end processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in snoRNA splicing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in termination of RNA polymerase II transcription	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of mRNA cleavage and polyadenylation specificity factor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of mRNA cleavage and polyadenylation specificity factor complex	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: cleavage polyadenylation factor subunit YSH1

NP_013379.1

Endoribonuclease; subunit of the mRNA cleavage and polyadenylation specificity complex; required for 3' processing, splicing, and transcriptional termination of mRNAs and snoRNAs; protein abundance increases in response to DNA replication stress; YSH1 has a paralog, SYC1, that arose from the whole genome duplication

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_001144.5 Reference assembly

Range

697156..699495 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001182164.1 → NP_013379.1 TPA: cleavage polyadenylation factor subunit YSH1 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_013379.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VYS4, Q06224

UniProtKB/TrEMBL

A7A1G1, B3RHF9, C7GVT3, G2WJA3

Conserved Domains (2) summary

COG1236
Location:9 → 470

YSH1; RNA processing exonuclease, beta-lactamase fold, Cft2 family [Translation, ribosomal structure and biogenesis]

pfam11718
Location:533 → 777

CPSF73-100_C; Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term