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Nploc4 NPL4 homolog, ubiquitin recognition factor [ Rattus norvegicus (Norway rat) ]

Gene ID: 140639, updated on 4-Jan-2025

Summary

Official Symbol
Nploc4provided by RGD
Official Full Name
NPL4 homolog, ubiquitin recognition factorprovided by RGD
Primary source
RGD:620794
See related
EnsemblRapid:ENSRNOG00000036698 AllianceGenome:RGD:620794
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Npl4
Summary
Enables ATPase binding activity; ubiquitin binding activity; and ubiquitin protein ligase binding activity. Contributes to K48-linked polyubiquitin modification-dependent protein binding activity and K63-linked polyubiquitin modification-dependent protein binding activity. Involved in Golgi organization and retrograde protein transport, ER to cytosol. Part of UFD1-NPL4 complex and VCP-NPL4-UFD1 AAA ATPase complex. Orthologous to human NPLOC4 (NPL4 homolog, ubiquitin recognition factor). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Muscle (RPKM 118.9), Heart (RPKM 105.8) and 9 other tissues See more
Orthologs
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Genomic context

See Nploc4 in Genome Data Viewer
Location:
10q32.3
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (106152756..106208306, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (105654395..105709958, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (109553518..109610087, complement)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene fascin actin-bundling protein 2, retinal Neighboring gene uncharacterized LOC134480918 Neighboring gene FA core complex associated protein 100 Neighboring gene tetraspanin 10 Neighboring gene phosphodiesterase 6G Neighboring gene oxidoreductase-like domain containing 1

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

Pathways from PubChem

Interactions

General gene information

Clone Names

  • MGC124575

Gene Ontology Provided by RGD

Process Evidence Code Pubs
involved_in ERAD pathway PubMed 
involved_in ERAD pathway  
involved_in Golgi organization PubMed 
NOT involved_in membrane fusion PubMed 
involved_in negative regulation of RIG-I signaling pathway  
involved_in negative regulation of RIG-I signaling pathway  
involved_in negative regulation of RIG-I signaling pathway  
involved_in negative regulation of type I interferon production  
involved_in negative regulation of type I interferon production  
involved_in negative regulation of type I interferon production  
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process  
involved_in retrograde protein transport, ER to cytosol PubMed 
involved_in retrograde protein transport, ER to cytosol  
involved_in retrograde protein transport, ER to cytosol  
involved_in retrograde protein transport, ER to cytosol  
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  
Component Evidence Code Pubs
part_of UFD1-NPL4 complex PubMed 
part_of UFD1-NPL4 complex  
part_of UFD1-NPL4 complex  
part_of VCP-NPL4-UFD1 AAA ATPase complex PubMed 
part_of VCP-NPL4-UFD1 AAA ATPase complex PubMed 
part_of VCP-NPL4-UFD1 AAA ATPase complex  
part_of VCP-NPL4-UFD1 AAA ATPase complex  
part_of VCP-NPL4-UFD1 AAA ATPase complex PubMed 
located_in cytosol  
is_active_in nucleus  

General protein information

Preferred Names
nuclear protein localization protein 4 homolog
Names
homolog of yeast nuclear protein localization 4
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_080577.2NP_542144.1  nuclear protein localization protein 4 homolog

    See identical proteins and their annotated locations for NP_542144.1

    Status: PROVISIONAL

    Source sequence(s)
    BC101887
    UniProtKB/Swiss-Prot
    Q3T1J3, Q9ES54
    UniProtKB/TrEMBL
    A0A0G2JU66, A6HLC6, F1LQX9
    Related
    ENSRNOP00000068982.3, ENSRNOT00000080188.3
    Conserved Domains (5) summary
    COG5100
    Location:5560
    NPL4; Nuclear pore protein [Nuclear structure]
    sd00029
    Location:584603
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam05020
    Location:105245
    zf-NPL4; NPL4 family, putative zinc binding region
    pfam05021
    Location:249556
    NPL4; NPL4 family
    pfam11543
    Location:180
    UN_NPL4; Nuclear pore localization protein NPL4

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_086028.1 Reference GRCr8

    Range
    106152756..106208306 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039085086.2XP_038941014.1  nuclear protein localization protein 4 homolog isoform X1

    UniProtKB/TrEMBL
    A0A0G2JU66, F1LQX9
    Related
    ENSRNOP00000100116.1, ENSRNOT00000168258.1
    Conserved Domains (5) summary
    smart00547
    Location:560582
    ZnF_RBZ; Zinc finger domain
    sd00029
    Location:560579
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam05020
    Location:105245
    zf-NPL4; NPL4 family, putative zinc binding region
    pfam11543
    Location:679
    UN_NPL4; Nuclear pore localization protein NPL4
    cl13996
    Location:249532
    MPN; Mpr1p, Pad1p N-terminal (MPN) domains
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