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    usp5 ubiquitin specific peptidase 5 (isopeptidase T) [ Danio rerio (zebrafish) ]

    Gene ID: 406618, updated on 9-Dec-2024

    Summary

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    Official Symbol
    usp5provided by ZNC
    Official Full Name
    ubiquitin specific peptidase 5 (isopeptidase T)provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-2584
    See related
    Ensembl:ENSDARG00000014517 AllianceGenome:ZFIN:ZDB-GENE-040426-2584
    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
    zgc:76990; wu:fa06b05; wu:fb36d11; wu:fc21h02; wu:fc61g08; wu:fi41g10
    Summary
    Predicted to enable cysteine-type deubiquitinase activity. Involved in negative regulation of viral genome replication. Acts upstream of or within cranial skeletal system development and dorsal/ventral pattern formation. Is active in cytoplasm. Orthologous to human USP5 (ubiquitin specific peptidase 5). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See usp5 in Genome Data Viewer
    Location:
    chromosome: 16
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (11965371..11986330, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (12074469..12095470, complement)

    Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene CD4-2 molecule, tandem duplicate 1 Neighboring gene CD4-2 molecule, tandem duplicate 2 Neighboring gene prolyl 3-hydroxylase 3 Neighboring gene guanine nucleotide binding protein (G protein), beta polypeptide 3a

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Zebrafish ubiquitin-specific peptidase 5 (USP5) activates interferon resistance to the virus by increase the expression of RIG-I. Yao J, et al. Gene, 2020 Aug 15. PMID 32407768
    2. A novel combination therapy targeting ubiquitin-specific protease 5 in MYCN-driven neuroblastoma. Cheung BB, et al. Oncogene, 2021 Apr. PMID 33658627, Free PMC Article
    3. Proteomic analysis of male zebrafish livers chronically exposed to perfluorononanoic acid. Zhang W, et al. Environ Int, 2012 Jul. PMID 21481936
    4. Zebrafish transforming growth factor-β-stimulated clone 22 domain 3 (TSC22D3) plays critical roles in Bmp-dependent dorsoventral patterning via two deubiquitylating enzymes Usp15 and Otud4. Tse WK, et al. Biochim Biophys Acta, 2013 Oct. PMID 23665588
    5. Importance of deubiquitinases in zebrafish craniofacial development. Tse WKF. Biochem Biophys Res Commun, 2017 Jun 10. PMID 28450118

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. A novel combination therapy targeting ubiquitin-specific protease 5 in MYCN-driven neuroblastoma.
      Title: A novel combination therapy targeting ubiquitin-specific protease 5 in MYCN-driven neuroblastoma.
    2. USP5 is able to activate higher levels of interferon by increasing RIG-I protein levels, and thus implement antivirus functions.
      Title: Zebrafish ubiquitin-specific peptidase 5 (USP5) activates interferon resistance to the virus by increase the expression of RIG-I.
    Submit: New GeneRIF Correction

    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 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
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within cranial skeletal system development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within dorsal/ventral pattern formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of viral genome replication IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within protein deubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of protein stability IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    ubiquitin carboxyl-terminal hydrolase 5
    Names
    ubiquitin specific protease 5
    NP_999920.2
    XP_005173534.1

    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_214755.2 → NP_999920.2  ubiquitin carboxyl-terminal hydrolase 5

      See identical proteins and their annotated locations for NP_999920.2

      Status: PROVISIONAL

      Source sequence(s)
      BC097033
      UniProtKB/TrEMBL
      Q4V973
      Related
      ENSDARP00000124239.1, ENSDART00000148666.3
      Conserved Domains (5) summary
      COG5207
      Location:24 → 831
      UBP14; Uncharacterized Zn-finger protein, UBP-type [General function prediction only]
      cd02658
      Location:325 → 830
      Peptidase_C19B; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
      cd14294
      Location:635 → 678
      UBA1_UBP5_like; UBA1 domain found in ubiquitin carboxyl-terminal hydrolase UBP5, UBP13 and similar proteins
      cd14386
      Location:701 → 742
      UBA2_UBP5; UBA2 domain found in ubiquitin carboxyl-terminal hydrolase 5 (UBP5)
      pfam02148
      Location:197 → 270
      zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

    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_007127.7 Reference GRCz11 Primary Assembly

      Range
      11965371..11986330 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005173477.5 → XP_005173534.1  ubiquitin carboxyl-terminal hydrolase 5 isoform X1

      See identical proteins and their annotated locations for XP_005173534.1

      UniProtKB/TrEMBL
      A0A8M2BL57, Q1MT86
      Related
      ENSDARP00000036699.7, ENSDART00000029121.8
      Conserved Domains (5) summary
      COG5207
      Location:24 → 850
      UBP14; Uncharacterized Zn-finger protein, UBP-type [General function prediction only]
      cd02658
      Location:325 → 849
      Peptidase_C19B; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
      cd14294
      Location:654 → 697
      UBA1_UBP5_like; UBA1 domain found in ubiquitin carboxyl-terminal hydrolase UBP5, UBP13 and similar proteins
      cd14386
      Location:720 → 761
      UBA2_UBP5; UBA2 domain found in ubiquitin carboxyl-terminal hydrolase 5 (UBP5)
      pfam02148
      Location:197 → 270
      zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394956.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      35782..56543 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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