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UFD4 putative ubiquitin-protein ligase UFD4 [ Saccharomyces cerevisiae S288C ]

Gene ID: 853859, updated on 2-Nov-2024

Summary

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Official Symbol
UFD4
Official Full Name
putative ubiquitin-protein ligase UFD4
Primary source
SGD:S000001493
Locus tag
YKL010C
See related
AllianceGenome:SGD:S000001493; FungiDB:YKL010C; VEuPathDB:YKL010C
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 proteasome regulatory particle binding activity and ubiquitin protein ligase activity. Involved in free ubiquitin chain polymerization; protein K29-linked ubiquitination; and ubiquitin-dependent protein catabolic process. Located in mitochondrion and nucleus. Used to study cancer. Human ortholog(s) of this gene implicated in Clark-Baraitser syndrome. Orthologous to human TRIP12 (thyroid hormone receptor interactor 12). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See UFD4 in Genome Data Viewer
Location:
chromosome: XI
Exon count:
1
Sequence:
Chromosome: XI; NC_001143.9 (421424..425875, complement)

Chromosome XI - NC_001143.9Genomic Context describing neighboring genes Neighboring gene Prp40p Neighboring gene cruciform cutting endonuclease Neighboring gene Mrt4p Neighboring gene sphingosine N-acyltransferase LAC1

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_001143.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. The armadillo repeats of the Ufd4 ubiquitin ligase recognize ubiquitin-fusion proteins. Ju D, et al. FEBS Lett, 2007 Jan 23. PMID 17204268
  2. Tandem fluorescent protein timers for in vivo analysis of protein dynamics. Khmelinskii A, et al. Nat Biotechnol, 2012 Jun 24. PMID 22729030
  3. A synthetic defect in protein degradation caused by loss of Ufd4 and Rad23. Ju D, et al. Biochem Biophys Res Commun, 2006 Mar 10. PMID 16430867
  4. Autoregulation of an E2 enzyme by ubiquitin-chain assembly on its catalytic residue. Ravid T, et al. Nat Cell Biol, 2007 Apr. PMID 17310239
  5. Two proteolytic pathways regulate DNA repair by cotargeting the Mgt1 alkylguanine transferase. Hwang CS, et al. Proc Natl Acad Sci U S A, 2009 Feb 17. PMID 19164530, Free PMC Article

See all (83) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Proteasome-dependent protein quality control of the peroxisomal membrane protein Pxa1p.
    Title: Proteasome-dependent protein quality control of the peroxisomal membrane protein Pxa1p.
  2. 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.
  3. Data suggest that Ufd4 assembles the K29-linked ubiquitin chain(s) on Ub-P-betagal in vivo.
    Title: The parallel reaction monitoring method contributes to a highly sensitive polyubiquitin chain quantification.
  4. Study shows that the RING-type Ubr1 E3 and the HECT-type Ufd4 E3 interact, both physically and functionally.
    Title: The N-end rule pathway is mediated by a complex of the RING-type Ubr1 and HECT-type Ufd4 ubiquitin ligases.
  5. Armadillo repeats of Ufd4, the E3 component of the UFD (Ub fusion degradation) pathway, recognize the Ub degradation signal of the UFD substrates.
    Title: The armadillo repeats of the Ufd4 ubiquitin ligase recognize ubiquitin-fusion proteins.
  6. Ufd4, the E3 component of the UFD pathway, is involved in controlling the degradation of Rad4, and Ufd4 and Rad23 exhibit a synthetic inhibitory effect on Rad4 degradation
    Title: A synthetic defect in protein degradation caused by loss of Ufd4 and Rad23.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by SGD

Function Evidence Code Pubs
enables proteasome regulatory particle binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin protein ligase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables ubiquitin protein ligase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in free ubiquitin chain polymerization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein K29-linked ubiquitination IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein polyubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in ubiquitin-dependent protein catabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in ubiquitin-dependent protein catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm HDA PubMed 
located_in mitochondrion HDA PubMed 
is_active_in nuclear speck IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus HDA PubMed 

General protein information

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Preferred Names
putative ubiquitin-protein ligase UFD4
NP_012915.3
  • Ubiquitin-protein ligase (E3); interacts with Rpt4p and Rpt6p, two subunits of the 19S particle of the 26S proteasome; involved in K29-linked ubiquitin-dependent protein catabolism, including ubiquitin fusion proteins; relative distribution to the nucleus increases 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

  1. NC_001143.9 Reference assembly

    Range
    421424..425875 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001179576.3 → NP_012915.3  TPA: putative ubiquitin-protein ligase UFD4 [Saccharomyces cerevisiae S288C]

    See identical proteins and their annotated locations for NP_012915.3

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    D6VXS6, P33202
    UniProtKB/TrEMBL
    A6ZZV5, G2WI21, N1P2I8
    Conserved Domains (1) summary
    COG5021
    Location:581 → 1482
    HUL4; Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P33202.1

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