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yod1 YOD1 deubiquitinase [ Danio rerio (zebrafish) ]

Gene ID: 550411, updated on 4-Jan-2025

Summary

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Official Symbol
yod1provided by ZNC
Official Full Name
YOD1 deubiquitinaseprovided by ZNC
Primary source
ZFIN:ZDB-GENE-050417-217
See related
Ensembl:ENSDARG00000008542 AllianceGenome:ZFIN:ZDB-GENE-050417-217
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
fe01a10; wu:fe01a10; zgc:112182
Summary
Predicted to enable cysteine-type deubiquitinase activity. Predicted to be involved in several processes, including ERAD pathway; endoplasmic reticulum unfolded protein response; and protein deubiquitination. Predicted to act upstream of or within proteolysis and response to unfolded protein. Predicted to be located in cytoplasm. Orthologous to human YOD1 (YOD1 deubiquitinase). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs
human mouse all
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Genomic context

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See yod1 in Genome Data Viewer
Location:
chromosome: 11
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 11 NC_007122.7 (37711022..37719988, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 11 NC_007122.6 (37443817..37452783, complement)

Chromosome 11 - NC_007122.7Genomic Context describing neighboring genes Neighboring gene kinesin family member 17 Neighboring gene zgc:158258 Neighboring gene small nuclear ribonucleoprotein polypeptide E Neighboring gene SRY-box transcription factor 13

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Zebrafish sirt5 Negatively Regulates Antiviral Innate Immunity by Attenuating Phosphorylation and Ubiquitination of mavs. Chen X, et al. J Immunol, 2022 Sep 15. PMID 36002231
  2. Genome-wide loss-of-function analysis of deubiquitylating enzymes for zebrafish development. Tse WK, et al. BMC Genomics, 2009 Dec 30. PMID 20040115, Free PMC Article
  3. A Toolbox for Efficient Proximity-Dependent Biotinylation in Zebrafish Embryos. Rosenthal SM, et al. Mol Cell Proteomics, 2021. PMID 34332124, Free PMC Article
  4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

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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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables cysteine-type deubiquitinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables cysteine-type deubiquitinase activity IEA
Inferred from Electronic Annotation
more info
  
enables cysteine-type deubiquitinase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables cysteine-type peptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables peptidase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in ERAD pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in ERAD pathway ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in endoplasmic reticulum unfolded protein response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in endoplasmic reticulum unfolded protein response ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in macroautophagy ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein K11-linked deubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein K27-linked deubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein K29-linked deubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein K33-linked deubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein K48-linked deubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein K63-linked deubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within proteolysis IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within response to unfolded protein IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
ubiquitin thioesterase OTU1
Names
YOD1 OTU deubiquinating enzyme 1 homolog
NP_001017716.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001017716.2 → NP_001017716.1  ubiquitin thioesterase OTU1

    Status: PROVISIONAL

    Source sequence(s)
    BC093247
    UniProtKB/Swiss-Prot
    Q567B1
    Related
    ENSDARP00000003565.6, ENSDART00000023388.8
    Conserved Domains (3) summary
    cd01769
    Location:5 → 75
    UBL; Ubiquitin-like domain of UBL
    COG5539
    Location:26 → 300
    COG5539; Predicted cysteine protease (OTU family) [Posttranslational modification, protein turnover, chaperones]
    cl19932
    Location:108 → 223
    OTU; OTU-like cysteine protease

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007122.7 Reference GRCz11 Primary Assembly

    Range
    37711022..37719988 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q567B1.1 GenPept UniProtKB/Swiss-Prot:Q567B1

Gene LinkOut

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