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    Ubr4 ubiquitin protein ligase E3 component n-recognin 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313658, updated on 9-Dec-2024

    Summary

    Official Symbol
    Ubr4provided by RGD
    Official Full Name
    ubiquitin protein ligase E3 component n-recognin 4provided by RGD
    Primary source
    RGD:1563121
    See related
    EnsemblRapid:ENSRNOG00000018183 AllianceGenome:RGD:1563121
    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
    Also known as
    Rbaf600
    Summary
    Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in several processes, including negative regulation of HRI-mediated signaling; proteasome-mediated ubiquitin-dependent protein catabolic process; and protein polyubiquitination. Predicted to act upstream of or within protein catabolic process and protein stabilization. Predicted to be located in endosome. Predicted to be active in centrosome; cytosol; and nucleoplasm. Orthologous to human UBR4 (ubiquitin protein ligase E3 component n-recognin 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 264.4), Adrenal (RPKM 251.7) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Ubr4 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    110
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (156919029..157027127)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (151635825..151743931)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (157848162..157956137)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene MRT4 homolog, ribosome maturation factor Neighboring gene ER membrane protein complex subunit 1 Neighboring gene transfer RNA valine (anticodon AAC) 3 Neighboring gene intermediate filament family orphan 2 Neighboring gene uncharacterized LOC134479043 Neighboring gene microRNA 6215

    Genomic regions, transcripts, and products

    Expression

    • 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

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calmodulin binding  
    enables calmodulin binding  
    enables ubiquitin protein ligase activity  
    enables ubiquitin protein ligase activity  
    enables ubiquitin protein ligase activity  
    enables ubiquitin-protein transferase activity  
    enables zinc ion binding  
    Items 1 - 25 of 41
    Process Evidence Code Pubs
    involved_in cytoplasm protein quality control  
    involved_in cytoplasm protein quality control  
    involved_in cytoplasm protein quality control by the ubiquitin-proteasome system  
    involved_in cytoplasm protein quality control by the ubiquitin-proteasome system  
    involved_in cytoplasm protein quality control by the ubiquitin-proteasome system  
    involved_in endosome organization  
    involved_in endosome organization  
    involved_in endosome organization  
    involved_in negative regulation of HRI-mediated signaling  
    involved_in negative regulation of HRI-mediated signaling  
    involved_in negative regulation of HRI-mediated signaling  
    involved_in negative regulation of fatty acid biosynthetic process  
    involved_in negative regulation of fatty acid biosynthetic process  
    involved_in positive regulation of autophagy  
    involved_in positive regulation of autophagy  
    involved_in positive regulation of autophagy  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process  
    involved_in protein K11-linked ubiquitination  
    involved_in protein K11-linked ubiquitination  
    involved_in protein K11-linked ubiquitination  
    involved_in protein K27-linked ubiquitination  
    involved_in protein K27-linked ubiquitination  
    involved_in protein K27-linked ubiquitination  
    involved_in protein K48-linked ubiquitination  
    involved_in protein K48-linked ubiquitination  
    involved_in protein K48-linked ubiquitination  
    involved_in protein branched polyubiquitination  
    involved_in protein branched polyubiquitination  
    involved_in protein branched polyubiquitination  
    acts_upstream_of_or_within protein catabolic process  
    involved_in protein stabilization  
    acts_upstream_of_or_within protein stabilization  
    involved_in protein ubiquitination  
    involved_in response to oxidative stress  
    involved_in response to oxidative stress  
    involved_in ubiquitin-dependent protein catabolic process  
    involved_in ubiquitin-dependent protein catabolic process  
    involved_in ubiquitin-dependent protein catabolic process  
    involved_in ubiquitin-dependent protein catabolic process via the N-end rule pathway  
    involved_in ubiquitin-dependent protein catabolic process via the N-end rule pathway  
    Items 1 - 25 of 41
    Component Evidence Code Pubs
    is_active_in centrosome  
    located_in centrosome  
    located_in centrosome  
    is_active_in cytoplasm  
    is_active_in cytoplasm  
    is_active_in cytosol  
    located_in cytosol  
    located_in cytosol  
    located_in endosome  
    located_in endosome  
    located_in endosome  
    is_active_in nucleoplasm  
    located_in nucleoplasm  
    located_in nucleoplasm  

    General protein information

    Preferred Names
    E3 ubiquitin-protein ligase UBR4
    Names
    N-recognin-4
    RING-type E3 ubiquitin transferase UBR4
    ZUBR1
    retinoblastoma-associated factor 600
    zinc finger UBR1-type protein 1
    NP_001382037.1
    XP_063143863.1
    XP_063143864.1
    XP_063143865.1
    XP_063143866.1
    XP_063143867.1
    XP_063143868.1
    XP_063143869.1
    XP_063143870.1
    XP_063143871.1
    XP_063143872.1
    XP_063143873.1

    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_001395108.1NP_001382037.1  E3 ubiquitin-protein ligase UBR4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A0A0G2JU89
      Related
      ENSRNOP00000069008.3, ENSRNOT00000082138.3
      Conserved Domains (3) summary
      smart00396
      Location:16611728
      ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
      pfam12773
      Location:36593703
      DZR; Double zinc ribbon
      pfam13764
      Location:43665162
      E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

    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_086023.1 Reference GRCr8

      Range
      156919029..157027127
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063287801.1XP_063143871.1  E3 ubiquitin-protein ligase UBR4 isoform X9

      UniProtKB/TrEMBL
      A0A0G2JU89
    2. XM_063287793.1XP_063143863.1  E3 ubiquitin-protein ligase UBR4 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JU89
    3. XM_063287796.1XP_063143866.1  E3 ubiquitin-protein ligase UBR4 isoform X4

      UniProtKB/TrEMBL
      A0A0G2JU89
    4. XM_063287794.1XP_063143864.1  E3 ubiquitin-protein ligase UBR4 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JU89
    5. XM_063287798.1XP_063143868.1  E3 ubiquitin-protein ligase UBR4 isoform X6

      UniProtKB/TrEMBL
      A0A0G2JU89
    6. XM_063287799.1XP_063143869.1  E3 ubiquitin-protein ligase UBR4 isoform X7

      UniProtKB/TrEMBL
      A0A0G2JU89
    7. XM_063287797.1XP_063143867.1  E3 ubiquitin-protein ligase UBR4 isoform X5

      UniProtKB/TrEMBL
      A0A0G2JU89
    8. XM_063287795.1XP_063143865.1  E3 ubiquitin-protein ligase UBR4 isoform X3

      UniProtKB/TrEMBL
      A0A0G2JU89
      Related
      ENSRNOP00000032156.5, ENSRNOT00000039663.7
    9. XM_063287800.1XP_063143870.1  E3 ubiquitin-protein ligase UBR4 isoform X8

      UniProtKB/TrEMBL
      A0A0G2JU89
    10. XM_063287803.1XP_063143873.1  E3 ubiquitin-protein ligase UBR4 isoform X11

      UniProtKB/TrEMBL
      A0A0G2JU89
    11. XM_063287802.1XP_063143872.1  E3 ubiquitin-protein ligase UBR4 isoform X10

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