PUB1 Pub1p [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: PUB1
Official Full Name: Pub1p
Primary source: SGD:S000004961
Locus tag: YNL016W
See related: AllianceGenome:SGD:S000004961; FungiDB:YNL016W; VEuPathDB:YNL016W
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: RNP1
Summary: Enables mRNA binding activity; poly(U) RNA binding activity; and ribosome binding activity. Involved in several processes, including cellular response to glucose starvation; regulation of gene expression; and stress granule assembly. Located in P-body; cytoplasmic stress granule; and nucleus. Used to study amyotrophic lateral sclerosis. Human ortholog(s) of this gene implicated in amyotrophic lateral sclerosis type 26. Orthologous to human TIA1 (TIA1 cytotoxic granule associated RNA binding protein) and TIAL1 (TIA1 cytotoxic granule associated RNA binding protein like 1). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See PUB1 in Genome Data Viewer

Location:: chromosome: XIV

Exon count:: 1

Sequence:: Chromosome: XIV; NC_001146.8 (602907..604268)

Chromosome XIV - NC_001146.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001146.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RNA-binding and prion domains: the Yin and Yang of phase separation.
Title: RNA-binding and prion domains: the Yin and Yang of phase separation.
PUB1 mutant shows increased glycerol-3-phosphate dehydrogenase activity during wine making, which is related with an increase in the Gpd1 levels.
Title: RNA binding protein Pub1p regulates glycerol production and stress tolerance by controlling Gpd1p activity during winemaking.
The Sup35/Pub1 complex, which also contains TUB1 mRNA and components of translation machinery, is important for the integrity of the tubulin cytoskeleton.
Title: Functional role of Tia1/Pub1 and Sup35 prion domains: directing protein synthesis machinery to the tubulin cytoskeleton.
Pub1p C-terminal RRM domain interacts with Tif4631p through a conserved region neighbouring the Pab1p binding site
Title: Pub1p C-terminal RRM domain interacts with Tif4631p through a conserved region neighbouring the Pab1p binding site.
Mutagenesis analysis revealed that residues on the beta-sheets of Pub1RRM1 and Pub1RRM2 are critical for poly(U) binding.
Title: Crystal structure of the two N-terminal RRM domains of Pub1 and the poly(U)-binding properties of Pub1.
The second of three RNA-recognition motifs (RRM) of Pub1 has been crystallized in this study; the second RRM may play a central role in poly(U) binding and determine the binding specificity of Pub1.
Title: Crystallization and preliminary crystallographic analysis of the second RRM of Pub1 from Saccharomyces cerevisiae.
PUB1 functions together with NAB2 to modulate mRNA stability and strengthen a model where nuclear events are coupled to the control of mRNA in the cytoplasm.
Title: An interaction between two RNA binding proteins, Nab2 and Pub1, links mRNA processing/export and mRNA stability.
Global analysis of Pub1 targets reveals a coordinate control of gene expression through modulation of binding and stability.
Title: Global analysis of Pub1p targets reveals a coordinate control of gene expression through modulation of binding and stability.
the p38 MAPK/Hog1p pathway regulates 3'-UTR-mediated translation by modulating recruitment of Pab1p and Pub1p, which can interact with the translation machinery
Title: p38 mitogen-activated protein kinase/Hog1p regulates translation of the AU-rich-element-bearing MFA2 transcript.

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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 RNA binding	IEA Inferred from Electronic Annotation more info
enables mRNA binding	HDA more info	PubMed
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA binding	IEA Inferred from Electronic Annotation more info
enables mRNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables poly(U) RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables ribosome binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in cellular response to glucose starvation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of mRNA stability	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of mRNA stability	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in stress granule assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in stress granule assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in translational termination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in translational termination	IPI Inferred from Physical Interaction more info	PubMed

Component	Evidence Code	Pubs
located_in P-body	IDA Inferred from Direct Assay more info	PubMed
located_in P-body	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic stress granule	HDA more info	PubMed
is_active_in cytoplasmic stress granule	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic stress granule	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasmic stress granule	IEA Inferred from Electronic Annotation more info
located_in nucleus	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: Pub1p

NP_014382.1

Poly (A)+ RNA-binding protein; abundant mRNP-component protein that binds cell wall mRNAs; required for stability of many mRNAs; component of glucose deprivation induced stress granules, involved in P-body-dependent granule assembly; implicated in regulation of translation; carries Q/N-rich domain at C- terminus, identified as candidate prion; ribosome-bound Pub1p modulates stop codon decoding during translation termination

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_001146.8 Reference assembly

Range

602907..604268

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001182855.1 → NP_014382.1 TPA: Pub1p [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_014382.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6W1G2, P32588

UniProtKB/TrEMBL

A6ZS61, B3LPQ2, B5VR20, C7GJF4, C8ZFL1, N1NXN6

Conserved Domains (3) summary

cd12614
Location:77 → 150

RRM1_PUB1; RNA recognition motif 1 (RRM1) found in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins

cd12619
Location:161 → 240

RRM2_PUB1; RNA recognition motif 2 (RRM2) found in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins

cd12622
Location:341 → 414

RRM3_PUB1; RNA recognition motif 3 (RRM3) found in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins