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

Gene ID: 313658, updated on 30-Mar-2024

Summary

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Official Symbol
Ubr4provided by RGD
Official Full Name
ubiquitin protein ligase E3 component n-recognin 4provided by RGD
Primary source
RGD:1563121
See related
Ensembl: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 ubiquitin-dependent protein catabolic process. Predicted to be integral component of membrane. 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, Apr 2022]
Expression
Biased expression in Kidney (RPKM 264.4), Adrenal (RPKM 251.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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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

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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. A Ca2+-dependent mechanism of neuronal survival mediated by the microtubule-associated protein p600. Belzil C, et al. J Biol Chem, 2013 Aug 23. PMID 23861403, Free PMC Article
  2. p600 stabilizes microtubules to prevent the aggregation of CaMKIIα during photoconductive stimulation. Belzil C, et al. Cell Mol Biol Lett, 2014 Sep. PMID 25034033, Free PMC Article
  3. Acetylation stabilizes ATP-citrate lyase to promote lipid biosynthesis and tumor growth. Lin R, et al. Mol Cell, 2013 Aug 22. PMID 23932781, 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. Physiological Tau Interactome in Brain and Its Link to Tauopathies. Sinsky J, et al. J Proteome Res, 2020 Jun 5. PMID 32357304

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Data indicate a distinct mechanism of prevention of Ca(2+)/calmodulin-dependent kinase IIalpha (CaMKIIalpha) aggregation by E3 ubiquitin-protein ligase p600 (UBR4).
    Title: p600 stabilizes microtubules to prevent the aggregation of CaMKIIα during photoconductive stimulation.
  2. p600 counteracts specific Ca(2+)-induced death pathways through regulation of Ca(2+) homeostasis and signaling.
    Title: A Ca2+-dependent mechanism of neuronal survival mediated by the microtubule-associated protein p600.
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 RGD

Function Evidence Code Pubs
enables calmodulin binding IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin protein ligase activity IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin protein ligase activity ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin protein ligase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables ubiquitin-protein transferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in negative regulation of fatty acid biosynthetic process IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of fatty acid biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
involved_in protein ubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in ubiquitin-dependent protein catabolic process 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 ISO
Inferred from Sequence Orthology
more info
  
involved_in ubiquitin-dependent protein catabolic process ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
is_active_in centrosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in centrosome IEA
Inferred from Electronic Annotation
more info
  
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  

General protein information

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

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000005
    UniProtKB/TrEMBL
    A0A0G2JU89
    Related
    ENSRNOP00000032156.4, ENSRNOT00000039663.6
    Conserved Domains (3) summary
    smart00396
    Location:1661 → 1728
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:3659 → 3703
    DZR; Double zinc ribbon
    pfam13764
    Location:4366 → 5162
    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_063287801.1 → XP_063143871.1  E3 ubiquitin-protein ligase UBR4 isoform X9

  2. XM_063287793.1 → XP_063143863.1  E3 ubiquitin-protein ligase UBR4 isoform X1

  3. XM_063287796.1 → XP_063143866.1  E3 ubiquitin-protein ligase UBR4 isoform X4

  4. XM_063287794.1 → XP_063143864.1  E3 ubiquitin-protein ligase UBR4 isoform X2

  5. XM_063287798.1 → XP_063143868.1  E3 ubiquitin-protein ligase UBR4 isoform X6

  6. XM_063287799.1 → XP_063143869.1  E3 ubiquitin-protein ligase UBR4 isoform X7

  7. XM_063287797.1 → XP_063143867.1  E3 ubiquitin-protein ligase UBR4 isoform X5

  8. XM_063287795.1 → XP_063143865.1  E3 ubiquitin-protein ligase UBR4 isoform X3

  9. XM_063287800.1 → XP_063143870.1  E3 ubiquitin-protein ligase UBR4 isoform X8

  10. XM_063287803.1 → XP_063143873.1  E3 ubiquitin-protein ligase UBR4 isoform X11

  11. XM_063287802.1 → XP_063143872.1  E3 ubiquitin-protein ligase UBR4 isoform X10

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001039026.1: Suppressed sequence

    Description
    NM_001039026.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q2TL32.2 GenPept UniProtKB/Swiss-Prot:Q2TL32

Gene LinkOut

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