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    Usp5 ubiquitin specific peptidase 5 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 297593, updated on 9-Dec-2024

    Summary

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    Symbol
    Usp5provided by RGD
    Full Name
    ubiquitin specific peptidase 5provided by RGD
    Primary source
    RGD:1308438
    See related
    EnsemblRapid:ENSRNOG00000015409 AllianceGenome:RGD:1308438
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable cysteine-type deubiquitinase activity and ubiquitin binding activity. Predicted to be involved in several processes, including protein K48-linked deubiquitination; regulation of ubiquitin-dependent protein catabolic process; and regulation protein catabolic process at presynapse. Predicted to be located in presynapse. Predicted to be active in cytosol and nucleus. Orthologous to human USP5 (ubiquitin specific peptidase 5). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 333.9), Adrenal (RPKM 269.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Usp5 in Genome Data Viewer
    Location:
    4q42
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (159305927..159321345, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (157619663..157634681, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (157332735..157347803, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486638 Neighboring gene leucine rich repeat containing 23 Neighboring gene splA/ryanodine receptor domain and SOCS box containing 2 Neighboring gene triosephosphate isomerase 1 Neighboring gene cell division cycle associated 3 Neighboring gene G protein subunit beta 3 Neighboring gene prolyl 3-hydroxylase 3 Neighboring gene uncharacterized LOC120102385

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Nitric oxide may inhibit neointimal hyperplasia by decreasing isopeptidase T levels and activity in the vasculature. Tsihlis ND, et al. J Vasc Surg, 2013 Jul. PMID 23375434, Free PMC Article
    2. Suppression of the deubiquitinating enzyme USP5 causes the accumulation of unanchored polyubiquitin and the activation of p53. Dayal S, et al. J Biol Chem, 2009 Feb 20. PMID 19098288, Free PMC Article
    3. USP13 antagonizes gp78 to maintain functionality of a chaperone in ER-associated degradation. Liu Y, et al. Elife, 2014. PMID 24424410, Free PMC Article
    4. Isolation of mammalian 26S proteasomes and p97/VCP complexes using the ubiquitin-like domain from HHR23B reveals novel proteasome-associated proteins. Besche HC, et al. Biochemistry, 2009 Mar 24. PMID 19182904, Free PMC Article
    5. Synaptic protein ubiquitination in rat brain revealed by antibody-based ubiquitome analysis. Na CH, et al. J Proteome Res, 2012 Sep 7. PMID 22871113, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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 RGD

    Function Evidence Code Pubs
    enables cysteine-type deubiquitinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cysteine-type deubiquitinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables deubiquitinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of proteasomal ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein K48-linked deubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of protein stability IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation protein catabolic process at presynapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    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
    		  
    located_in presynapse IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    ubiquitin carboxyl-terminal hydrolase 5
    Names
    ubiquitin carboxyl-terminal hydrolase 5-like
    ubiquitin specific peptidase 5 (isopeptidase T)
    ubiquitin specific protease 5 (isopeptidase T)
    NP_001100089.1
    NP_001381298.1
    XP_063141977.1

    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_001106619.3 → NP_001100089.1  ubiquitin carboxyl-terminal hydrolase 5 isoform 1

      See identical proteins and their annotated locations for NP_001100089.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A0A8I5ZLA4, A6ILL7, D3ZVQ0
      Related
      ENSRNOP00000020785.4, ENSRNOT00000020785.7
      Conserved Domains (5) summary
      COG5207
      Location:18 → 855
      UBP14; Uncharacterized Zn-finger protein, UBP-type [General function prediction only]
      cd02658
      Location:327 → 854
      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 ...
      cd14383
      Location:655 → 702
      UBA1_UBP5; UBA1 domain found in ubiquitin carboxyl-terminal hydrolase 5 (UBP5)
      cd14386
      Location:723 → 765
      UBA2_UBP5; UBA2 domain found in ubiquitin carboxyl-terminal hydrolase 5 (UBP5)
      pfam02148
      Location:199 → 272
      zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

    2. NM_001394369.1 → NP_001381298.1  ubiquitin carboxyl-terminal hydrolase 5 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A0A8I5ZLA4

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      159305927..159321345 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063285907.1 → XP_063141977.1  ubiquitin carboxyl-terminal hydrolase 5 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZLA4
    Nucleotide Protein Strain
    Heading Accession and Version

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