UBC4 E2 ubiquitin-conjugating protein UBC4 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: UBC4
Gene description: E2 ubiquitin-conjugating protein UBC4
Primary source: SGD:S000000286
Locus tag: YBR082C
See related: AllianceGenome:SGD:S000000286
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Summary: Enables several functions, including proteasome binding activity; ubiquitin binding activity; and ubiquitin-protein transferase activity. Involved in cellular protein metabolic process and cellular response to heat. Located in cytoplasm and nucleus. Orthologous to several human genes including UBE2D2 (ubiquitin conjugating enzyme E2 D2); UBE2D3 (ubiquitin conjugating enzyme E2 D3); and UBE2D4 (ubiquitin conjugating enzyme E2 D4 (putative)). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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Location:: chromosome: II

Exon count:: 2

Sequence:: Chromosome: II; NC_001134.8 (406628..407169, complement)

Chromosome II - NC_001134.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001134.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RPS12 and UBC4 Are Related to Senescence Signal Production in the Ribosomal RNA Gene Cluster.
Title: RPS12 and UBC4 Are Related to Senescence Signal Production in the Ribosomal RNA Gene Cluster.
Together, these data point to an important role for Tom1, Ubc4 and Ubc5 in normal physiology and prompt the authors to refer to this pathway as ERISQ, for excess ribosomal protein quality control.
Title: A conserved quality-control pathway that mediates degradation of unassembled ribosomal proteins.
the UBA domain of Ubc1 ensures efficient polyubiquitination of substrate by balancing Ubc1 affinity with that of Ubc4
Title: An E2 accessory domain increases affinity for the anaphase-promoting complex and ensures E2 competition.
Rad25 turnover requires the ubiquitin-conjugating enzyme Ubc4 and the ubiquitin ligase Ufd4.
Title: Rad25 protein is targeted for degradation by the Ubc4-Ufd4 pathway.
The major ubiquitin ligase targeting the superfluous Fas2 subunit to the proteasome is Ubr1. The ubiquitin-conjugating enzymes Ubc2 and Ubc4 assist the degradation process.
Title: Quality control of a cytoplasmic protein complex: chaperone motors and the ubiquitin-proteasome system govern the fate of orphan fatty acid synthase subunit Fas2 of yeast.
Ubc4 and Ubc5 are 1) the primary E2s for Rsp5 in yeast and 2) act as monoubiquitinating E2s in RING E3-catalyzed pathways
Title: The essential Ubc4/Ubc5 function in yeast is HECT E3-dependent, and RING E3-dependent pathways require only monoubiquitin transfer by Ubc4.
Data suggest that regular turnover of Cdc17 via Ubc4 and Not4 is required for proper cell proliferation.
Title: Ubc4 and Not4 regulate steady-state levels of DNA polymerase-α to promote efficient and accurate DNA replication.
Gap1 was removed from the plasma membrane in the presence of ethanol in a Rsp5-dependent manner, and that the disappearance of Gap1 required Ubc4 and involved the lysine residues of ubiquitin.
Title: A functional analysis of the yeast ubiquitin ligase Rsp5: the involvement of the ubiquitin-conjugating enzyme Ubc4 and poly-ubiquitination in ethanol-induced down-regulation of targeted proteins.
Data demonstrated that excess histones associate with Rad53, and also identified Ubc4 and Ubc5, as well as Tom1 as enzymes involved in the ubiquitylation of excess histones.
Title: Histone levels are regulated by phosphorylation and ubiquitylation-dependent proteolysis.
Ubc4 is required for Chf2-dependent G(1) cell cycle delay.
Title: Yeast Chfr homologs retard cell cycle at G1 and G2/M via Ubc4 and Ubc13/Mms2-dependent ubiquitination.

Submit: New GeneRIF Correction See all GeneRIFs (13)

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 ATP binding	IEA Inferred from Electronic Annotation more info
enables proteasome binding	IDA Inferred from Direct Assay more info	PubMed
enables protein-macromolecule adaptor activity	IDA Inferred from Direct Assay more info	PubMed
enables transferase activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin binding	IDA Inferred from Direct Assay more info	PubMed
enables ubiquitin binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables ubiquitin conjugating enzyme activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin conjugating enzyme activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin protein ligase binding	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin-protein transferase activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in cellular response to heat	IDA Inferred from Direct Assay more info	PubMed
involved_in cytoplasm protein quality control by the ubiquitin-proteasome system	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitochondria-associated ubiquitin-dependent protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein polyubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein ubiquitination	IEA Inferred from Electronic Annotation more info
involved_in ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
part_of ubiquitin ligase complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: E2 ubiquitin-conjugating protein UBC4

NP_009638.1

EC 2.3.2.23

Ubiquitin-conjugating enzyme (E2); key E2 partner with Ubc1p for the anaphase-promoting complex (APC); mediates degradation of abnormal or excess proteins, including calmodulin and histone H3; regulates levels of DNA Polymerase-{alpha} to promote efficient and accurate DNA replication; interacts with many SCF ubiquitin protein ligases; component of the cellular stress response; UBC4 has a paralog, UBC5, 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_001134.8 Reference assembly

Range

406628..407169 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001178430.1 → NP_009638.1 TPA: E2 ubiquitin-conjugating protein UBC4 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_009638.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VQ81, P15731

UniProtKB/TrEMBL

A6ZL28, B3LGL0, B3LN70, C8Z4X8, D3UEH5, G2W988, N1P6K1

Conserved Domains (1) summary

cl00154
Location:3 → 147

UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...