DEP1 Rpd3L histone deacetylase complex subunit DEP1 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: DEP1
Official Full Name: Rpd3L histone deacetylase complex subunit DEP1
Primary source: SGD:S000000011
Locus tag: YAL013W
See related: AllianceGenome:SGD:S000000011; FungiDB:YAL013W; VEuPathDB:YAL013W
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: FUN54
Summary: Predicted to enable histone deacetylase binding activity. Involved in several processes, including regulation of gene expression; regulation of inositol biosynthetic process; and regulation of phospholipid biosynthetic process. Located in mitochondrion and nucleus. Part of Rpd3L complex. [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See DEP1 in Genome Data Viewer

Location:: chromosome: I

Exon count:: 1

Sequence:: Chromosome: I; NC_001133.9 (129270..130487)

Chromosome I - NC_001133.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001133.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The Dep1 protein: A new regulator of mitophagy in yeast.
Title: The Dep1 protein: A new regulator of mitophagy in yeast.

Submit: New GeneRIF Correction

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 histone deacetylase binding	IBA Inferred from Biological aspect of Ancestor more info
enables molecular_function	ND No biological Data available more info

Process	Evidence Code	Pubs
involved_in cellular response to heat	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of inositol biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of phosphatidylcholine biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of phosphatidylserine biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of rDNA heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of silent mating-type cassette heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of inositol biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of phosphatidylcholine biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of phosphatidylserine biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated DNA replication initiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of Rpd3L complex	HDA more info	PubMed
part_of Rpd3L complex	IDA Inferred from Direct Assay more info	PubMed
part_of Rpd3L-Expanded complex	HDA more info	PubMed
part_of Sin3-type complex	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	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: Rpd3L histone deacetylase complex subunit DEP1

NP_009389.3

Component of the Rpd3L histone deacetylase complex; required for diauxic shift-induced histone H2B deposition onto rDNA genes; transcriptional modulator involved in regulation of structural phospholipid biosynthesis genes and metabolically unrelated genes, as well as maintenance of telomeres, mating efficiency, and sporulation; localizes to both the nucleus and mitochondria where it may play a role in mitophagy

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_001133.9 Reference assembly

Range

129270..130487

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001178158.2 → NP_009389.3 TPA: Rpd3L histone deacetylase complex subunit DEP1 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_009389.3

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VPK5, P31385, Q86ZS5

UniProtKB/TrEMBL

A7A0F6, G2W8L9, N1P932

Conserved Domains (1) summary

pfam08598
Location:182 → 402

Sds3; Sds3-like