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

    Gene ID: 217365, updated on 30-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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    See Nploc4 in Genome Data Viewer
    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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