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Nploc4 NPL4 homolog, ubiquitin recognition factor [ Mus musculus (house mouse) ]

Gene ID: 217365, updated on 11-Apr-2024

Summary

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Official Symbol
Nploc4provided by MGI
Official Full Name
NPL4 homolog, ubiquitin recognition factorprovided by MGI
Primary source
MGI:MGI:2679787
See related
Ensembl:ENSMUSG00000039703 AllianceGenome:MGI:2679787
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
Npl4; mKIAA1499
Summary
Predicted to enable ATPase binding activity; ubiquitin binding activity; and ubiquitin protein ligase binding activity. Predicted to contribute to K48-linked polyubiquitin modification-dependent protein binding activity and K63-linked polyubiquitin modification-dependent protein binding activity. Predicted to be involved in several processes, including negative regulation of RIG-I signaling pathway; negative regulation of type I interferon production; and proteolysis involved in cellular protein catabolic process. Predicted to be located in cytosol. Predicted to be part of UFD1-NPL4 complex and VCP-NPL4-UFD1 AAA ATPase complex. Predicted to be active in nucleus. Orthologous to human NPLOC4 (NPL4 homolog, ubiquitin recognition factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis adult (RPKM 28.6), ovary adult (RPKM 21.8) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
11 E2; 11 84.09 cM
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (120270624..120328526, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (120379798..120437700, complement)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene fascin actin-bundling protein 2 Neighboring gene Fanconi anemia core complex associated protein 100 Neighboring gene STARR-seq mESC enhancer starr_31358 Neighboring gene STARR-seq mESC enhancer starr_31359 Neighboring gene tetraspanin 10 Neighboring gene phosphodiesterase 6G, cGMP-specific, rod, gamma

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: 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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Related articles in PubMed

  1. Detailed structural insights into the p97-Npl4-Ufd1 interface. Isaacson RL, et al. J Biol Chem, 2007 Jul 20. PMID 17491009
  2. Differential Involvement of the Npl4 Zinc Finger Domains of SHARPIN and HOIL-1L in Linear Ubiquitin Chain Assembly Complex-Mediated Cell Death Protection. Shimizu S, et al. Mol Cell Biol, 2016 May 15. PMID 26976635, Free PMC Article
  3. Distinct conformations of the protein complex p97-Ufd1-Npl4 revealed by electron cryomicroscopy. Bebeacua C, et al. Proc Natl Acad Sci U S A, 2012 Jan 24. PMID 22232657, Free PMC Article
  4. Direct binding of ubiquitin conjugates by the mammalian p97 adaptor complexes, p47 and Ufd1-Npl4. Meyer HH, et al. EMBO J, 2002 Nov 1. PMID 12411482, Free PMC Article
  5. The Transitional Endoplasmic Reticulum ATPase p97 Regulates the Alternative Nuclear Factor NF-κB Signaling via Partial Degradation of the NF-κB Subunit p100. Zhang Z, et al. J Biol Chem, 2015 Aug 7. PMID 26112410, Free PMC Article

See all (30) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The study revealed a regulatory role of the p97-Npl4-Ufd1 complex in regulating a partial degradation of the NF-kappaB subunit p100.
    Title: The Transitional Endoplasmic Reticulum ATPase p97 Regulates the Alternative Nuclear Factor NF-κB Signaling via Partial Degradation of the NF-κB Subunit p100.
  2. structural analysis of the p97-Npl4-Ufd1 interface
    Title: Detailed structural insights into the p97-Npl4-Ufd1 interface.
  3. the p97-Ufd1-Npl4 complex couples ubiquitinated IP(3) receptors to proteasomal degradation and, thus, plays a key role in IP(3) receptor processing
    Title: Involvement of the p97-Ufd1-Npl4 complex in the regulated endoplasmic reticulum-associated degradation of inositol 1,4,5-trisphosphate receptors.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • KIAA1499

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATPase binding ISO
Inferred from Sequence Orthology
more info
  
contributes_to K48-linked polyubiquitin modification-dependent protein binding ISO
Inferred from Sequence Orthology
more info
  
contributes_to K63-linked polyubiquitin modification-dependent protein binding ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin binding ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin protein ligase binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in Golgi organization ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of RIG-I signaling pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of type I interferon production ISO
Inferred from Sequence Orthology
more info
  
involved_in retrograde protein transport, ER to cytosol EXP
Inferred from Experiment
more info
 PubMed 
involved_in retrograde protein transport, ER to cytosol ISO
Inferred from Sequence Orthology
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
  
Component Evidence Code Pubs
part_of UFD1-NPL4 complex ISO
Inferred from Sequence Orthology
more info
  
part_of VCP-NPL4-UFD1 AAA ATPase complex EXP
Inferred from Experiment
more info
 PubMed 
part_of VCP-NPL4-UFD1 AAA ATPase complex ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
nuclear protein localization protein 4 homolog
Names
nuclear protein localization 4 homolog

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_001195023.1 → NP_001181952.1  nuclear protein localization protein 4 homolog isoform A

    See identical proteins and their annotated locations for NP_001181952.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (A) represents the longer transcript and encodes the longer isoform (A).
    Source sequence(s)
    AK149912, AL669855
    Consensus CDS
    CCDS56827.1
    UniProtKB/Swiss-Prot
    B1ATY4, B1ATY5, P60670
    UniProtKB/TrEMBL
    Q3UDU9, Q3UE06
    Related
    ENSMUSP00000035851.9, ENSMUST00000044271.15
    Conserved Domains (5) summary
    smart00547
    Location:584 → 606
    ZnF_RBZ; Zinc finger domain
    sd00029
    Location:584 → 603
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam05020
    Location:105 → 245
    zf-NPL4; NPL4 family, putative zinc binding region
    pfam05021
    Location:249 → 556
    NPL4; NPL4 family
    pfam11543
    Location:6 → 79
    UN_NPL4; Nuclear pore localization protein NPL4

  2. NM_199469.2 → NP_955763.1  nuclear protein localization protein 4 homolog isoform B

    See identical proteins and their annotated locations for NP_955763.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (B) lacks an in-frame exon in the coding region, compared to variant A. This results in a shorter protein (isoform B), compared to isoform A.
    Source sequence(s)
    AL669855, BC065156
    Consensus CDS
    CCDS25732.1
    UniProtKB/TrEMBL
    Q3UDU9, Q3UE06
    Related
    ENSMUSP00000099306.4, ENSMUST00000103017.4
    Conserved Domains (5) summary
    COG5100
    Location:5 → 528
    NPL4; Nuclear pore protein [Nuclear structure]
    sd00029
    Location:552 → 571
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam05020
    Location:105 → 245
    zf-NPL4; NPL4 family, putative zinc binding region
    pfam11543
    Location:1 → 80
    UN_NPL4; Nuclear pore localization protein NPL4
    cl13996
    Location:249 → 524
    MPN; Mpr1p, Pad1p N-terminal (MPN) domains

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000077.7 Reference GRCm39 C57BL/6J

    Range
    120270624..120328526 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006533134.3 → XP_006533197.1  nuclear protein localization protein 4 homolog isoform X1

    UniProtKB/TrEMBL
    Q3UDU9, Q3UE06
    Conserved Domains (3) summary
    sd00029
    Location:496 → 515
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam05020
    Location:17 → 157
    zf-NPL4; NPL4 family, putative zinc binding region
    pfam05021
    Location:161 → 468
    NPL4; NPL4 family

  2. XM_036156619.1 → XP_036012512.1  nuclear protein localization protein 4 homolog isoform X1

    UniProtKB/TrEMBL
    Q3UDU9, Q3UE06
    Conserved Domains (3) summary
    sd00029
    Location:496 → 515
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam05020
    Location:17 → 157
    zf-NPL4; NPL4 family, putative zinc binding region
    pfam05021
    Location:161 → 468
    NPL4; NPL4 family
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P60670.3 GenPept UniProtKB/Swiss-Prot:P60670

Gene LinkOut

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