Ubr4 ubiquitin protein ligase E3 component n-recognin 4 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ubr4provided by MGI
Official Full Name: ubiquitin protein ligase E3 component n-recognin 4provided by MGI
Primary source: MGI:MGI:1916366
See related: Ensembl:ENSMUSG00000066036 AllianceGenome:MGI:1916366
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: p600; Zubr1; Gm1032; Gm1666; RBAF600; mKIAA0462; 1810009A16Rik; A930005E13Rik; D930005K06Rik
Summary: Enables calmodulin binding activity and ubiquitin protein ligase activity. Involved in endosome organization; positive regulation of autophagy; and ubiquitin-dependent protein catabolic process via the N-end rule pathway. Acts upstream of or within protein catabolic process and protein stabilization. Located in endosome. Is expressed in several structures, including alimentary system; brain; genitourinary system; respiratory system; and sensory organ. Orthologous to human UBR4 (ubiquitin protein ligase E3 component n-recognin 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in testis adult (RPKM 30.4), thymus adult (RPKM 22.5) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 4 D3; 4 70.66 cM

Exon count:: 106

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	4	NC_000070.7 (139107970..139216844)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	4	NC_000070.6 (139380659..139489533)

Chromosome 4 - NC_000070.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

UBR4/POE facilitates secretory trafficking to maintain circadian clock synchrony.
Title: UBR4/POE facilitates secretory trafficking to maintain circadian clock synchrony.
Antagonistic control of myofiber size and muscle protein quality control by the ubiquitin ligase UBR4 during aging.
Title: Antagonistic control of myofiber size and muscle protein quality control by the ubiquitin ligase UBR4 during aging.
A Key Role for the Ubiquitin Ligase UBR4 in Myofiber Hypertrophy in Drosophila and Mice.
Title: A Key Role for the Ubiquitin Ligase UBR4 in Myofiber Hypertrophy in Drosophila and Mice.
UBR4-deficient mouse embryos suffer from multiple abnormalities in neurogenesis and other developmental processes. Histological and cytological examinations suggest that the cells in mutant embryos fail to maintain their morphology and adhesion, leading to failure to communicate with each other and advance into more differentiated stages.
Title: The N-recognin UBR4 of the N-end rule pathway is required for neurogenesis and homeostasis of cell surface proteins.
Ubiquitin ligase Ubr4 is a key component of the podocin interactome purified from cultured podocytes and native glomeruli. Ubiquitylomic analysis of mouse glomeruli revealed that podocin is ubiquitylated at two lysine residues. Ubiquitylation of one podocin site, K301, do not only target podocin for proteasomal degradation, but may also affect stability and disassembly of the multimeric complex.
Title: The ubiquitin ligase Ubr4 controls stability of podocin/MEC-2 supercomplexes.
This study is the first to identify a novel E3 ubiquitin ligase component, UBR4, in the murine SCN and to implicate the N-end rule degradation pathway as a potential player in regulating core clock mechanisms and photic entrainment.
Title: Time-of-day- and light-dependent expression of ubiquitin protein ligase E3 component N-recognin 4 (UBR4) in the suprachiasmatic nucleus circadian clock.
UBR4-deficient mice die during embryogenesis and exhibit pleiotropic abnormalities, including impaired vascular development in the yolk sac.
Title: UBR box N-recognin-4 (UBR4), an N-recognin of the N-end rule pathway, and its role in yolk sac vascular development and autophagy.
This study identified protein 600 (p600) as a novel microtubule-associated protein (MAP) developmentally regulated in neurons. p600 exhibits the unique feature to interact with the endoplasmic reticulum (ER).
Title: Protein 600 is a microtubule/endoplasmic reticulum-associated protein in CNS neurons.
Bovine papillomavirus E7 transformation function correlates with cellular p600 protein binding in mice.
Title: Bovine papillomavirus E7 transformation function correlates with cellular p600 protein binding.
Found murine p600 (formally called RBAF600) copurified with the E7 oncoprotein in C127 cells. This interaction was found to correlate with the ability of E7 to increase transformation.
Title: Bovine papillomavirus E7 transformation function correlates with cellular p600 protein binding.

Submit: New GeneRIF Correction See all GeneRIFs (11)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)
Gene trapped (1)
Targeted (5) 1 citation
Transgenic (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH125062 (e-PCR)
- UniSTS:161884

Ubr4 (e-PCR), detects polymorphism
- UniSTS:547169

AI136251 (e-PCR)
- UniSTS:243840

MARC_14865-14866:1010760329:1 (e-PCR)
- UniSTS:267757

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables calmodulin binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ubiquitin protein ligase activity	IDA Inferred from Direct Assay more info	PubMed
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 cytoplasm protein quality control	ISO Inferred from Sequence Orthology more info
involved_in cytoplasm protein quality control	ISS Inferred from Sequence or Structural Similarity more info
involved_in cytoplasm protein quality control by the ubiquitin-proteasome system	ISO Inferred from Sequence Orthology more info
involved_in cytoplasm protein quality control by the ubiquitin-proteasome system	ISS Inferred from Sequence or Structural Similarity more info
involved_in endosome organization	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of HRI-mediated signaling	ISS Inferred from Sequence or Structural Similarity more info
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 positive regulation of autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in protein K11-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein K11-linked ubiquitination	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein K27-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein K27-linked ubiquitination	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein K48-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein K48-linked ubiquitination	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein branched polyubiquitination	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein stabilization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to oxidative stress	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	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in ubiquitin-dependent protein catabolic process via the N-end rule pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in ubiquitin-dependent protein catabolic process via the N-end rule pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in ubiquitin-dependent protein catabolic process via the N-end rule pathway	ISO Inferred from Sequence Orthology 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 cytoplasm	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 endosome	IDA Inferred from Direct Assay more info	PubMed
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; retinoblastoma-associated factor 600; zinc finger UBR1-type protein 1; zinc finger, UBR1 type 1

NP_001153791.1

EC 2.3.2.27

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.