LSM4 U6 snRNA complex subunit LSM4 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: LSM4
Official Full Name: U6 snRNA complex subunit LSM4
Primary source: SGD:S000000914
Locus tag: YER112W
See related: AllianceGenome:SGD:S000000914; FungiDB:YER112W; VEuPathDB:YER112W
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: SDB23; USS1
Summary: Enables U6 snRNA binding activity. Involved in P-body assembly; cellular response to glucose starvation; and mRNA splicing, via spliceosome. Located in P-body and nucleolus. Part of Lsm1-7-Pat1 complex; sno(s)RNA-containing ribonucleoprotein complex; and spliceosomal snRNP complex. Used to study cancer. Orthologous to human LSM4 (LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See LSM4 in Genome Data Viewer

Location:: chromosome: V

Exon count:: 1

Sequence:: Chromosome: V; NC_001137.3 (387232..387795)

Chromosome V - NC_001137.3 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001137.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Subcloning analysis revealed that the Q/N-rich region of Lsm4 is responsible for the prion loss.
Title: A bipolar functionality of Q/N-rich proteins: Lsm4 amyloid causes clearance of yeast prions.
Data show that in the mRNA degradation mutant Kllsm4Delta1, histone mRNAs are induced early in the S-phase and maintained at high level all along the entire cell cycle due to a delay in the exit from S-phase and/or entry into M-phase.
Title: Yeast lsm pro-apoptotic mutants show defects in S-phase entry and progression.
Edc3p and a glutamine/asparagine-rich domain of Lsm4p function in processing body assembly in Saccharomyces cerevisiae
Title: Edc3p and a glutamine/asparagine-rich domain of Lsm4p function in processing body assembly 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 RNA binding	IEA Inferred from Electronic Annotation more info
enables U6 snRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables U6 snRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables U6 snRNA binding	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in P-body assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in P-body assembly	IGI Inferred from Genetic Interaction more info	PubMed
involved_in P-body assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in cellular response to glucose starvation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cellular response to glucose starvation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in mRNA splicing, via spliceosome	IEA Inferred from Electronic Annotation more info
involved_in mRNA splicing, via spliceosome	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear-transcribed mRNA catabolic process	IEA Inferred from Electronic Annotation more info
involved_in rRNA processing	IEA Inferred from Electronic Annotation more info
involved_in spliceosomal snRNP assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in tRNA processing	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of Lsm1-7-Pat1 complex	IDA Inferred from Direct Assay more info	PubMed
is_active_in P-body	IBA Inferred from Biological aspect of Ancestor more info
located_in P-body	IDA Inferred from Direct Assay more info	PubMed
part_of U4/U6 x U5 tri-snRNP complex	IDA Inferred from Direct Assay more info	PubMed
part_of U6 snRNP	IBA Inferred from Biological aspect of Ancestor more info
part_of U6 snRNP	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	HDA more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleolus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	HDA more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of sno(s)RNA-containing ribonucleoprotein complex	IPI Inferred from Physical Interaction more info	PubMed
part_of spliceosomal complex	IEA Inferred from Electronic Annotation more info
part_of spliceosomal snRNP complex	IEA Inferred from Electronic Annotation more info
part_of spliceosomal tri-snRNP complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: U6 snRNA complex subunit LSM4

NP_011037.3

Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; forms cytoplasmic foci upon DNA replication stress

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_001137.3 Reference assembly

Range

387232..387795

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001179002.3 → NP_011037.3 TPA: U6 snRNA complex subunit LSM4 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_011037.3

Status: REVIEWED

UniProtKB/Swiss-Prot

D3DM18, P40070, Q07091

Conserved Domains (1) summary

cd01723
Location:2 → 87

LSm4; Like-Sm protein 4