NPL4 nuclear protein localization protein 4 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: NPL4
Official Full Name: nuclear protein localization protein 4
Primary source: SGD:S000000374
Locus tag: YBR170C
See related: AllianceGenome:SGD:S000000374; FungiDB:YBR170C; VEuPathDB:YBR170C
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: HRD4
Summary: Enables K48-linked polyubiquitin modification-dependent protein binding activity. Involved in several processes, including mitotic spindle disassembly; nonfunctional rRNA decay; and proteasomal protein catabolic process. Acts upstream of or within endosome to plasma membrane protein transport. Located in nuclear outer membrane-endoplasmic reticulum membrane network. Part of several cellular components, including Cdc48p-Npl4p-Vms1p AAA ATPase complex; RQC complex; and endoplasmic reticulum membrane. Orthologous to human NPLOC4 (NPL4 homolog, ubiquitin recognition factor). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See NPL4 in Genome Data Viewer

Location:: chromosome: II

Exon count:: 1

Sequence:: Chromosome: II; NC_001134.8 (576344..578086, complement)

Chromosome II - NC_001134.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001134.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Cdc48Ufd1/Npl4 segregase removes mislocalized centromeric histone H3 variant CENP-A from non-centromeric chromatin.
Title: Cdc48Ufd1/Npl4 segregase removes mislocalized centromeric histone H3 variant CENP-A from non-centromeric chromatin.
Study reports the crystal structures of yeast Npl4 in complex with Lys48-linked diubiquitin and with the Npl4-binding motif of Ufd1. The distal and proximal ubiquitin moieties of Lys48-linked diubiquitin primarily interact with the C-terminal helix and N-terminal loop of the Npl4 C-terminal domain (CTD), respectively.
Title: Structural insights into ubiquitin recognition and Ufd1 interaction of Npl4.
Ssz1 restores endoplasmic reticulum-associated protein degradation in cells expressing defective cdc48-ufd1-npl4 complex by upregulating cdc48.
Title: Ssz1 restores endoplasmic reticulum-associated protein degradation in cells expressing defective cdc48-ufd1-npl4 complex by upregulating cdc48.
One Ufd1-Npl4 heterodimer is shown to interact with one p97 hexamer to form the p97-Ufd1-Npl4 complex.
Title: Structural insights into the p97-Ufd1-Npl4 complex.

Submit: New GeneRIF Correction

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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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables K48-linked polyubiquitin modification-dependent protein binding	IDA Inferred from Direct Assay more info	PubMed
enables ubiquitin binding	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin protein ligase binding	IBA Inferred from Biological aspect of Ancestor more info
enables zinc ion binding	RCA inferred from Reviewed Computational Analysis more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA replication termination	IDA Inferred from Direct Assay more info	PubMed
involved_in ERAD pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cytoplasm protein quality control by the ubiquitin-proteasome system	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within endosome to plasma membrane protein transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA transport	IEA Inferred from Electronic Annotation more info
involved_in mitochondria-associated ubiquitin-dependent protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitotic spindle disassembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nonfunctional rRNA decay	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of protein localization to nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein localization to vacuole	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein transport	IEA Inferred from Electronic Annotation more info
involved_in retrograde protein transport, ER to cytosol	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in ribosome-associated ubiquitin-dependent protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
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

Component	Evidence Code	Pubs
part_of Cdc48p-Npl4p-Vms1p AAA ATPase complex	IDA Inferred from Direct Assay more info	PubMed
part_of Doa10p ubiquitin ligase complex	IDA Inferred from Direct Assay more info	PubMed
part_of Hrd1p ubiquitin ligase ERAD-L complex	IDA Inferred from Direct Assay more info	PubMed
part_of RQC complex	IDA Inferred from Direct Assay more info	PubMed
part_of VCP-NPL4-UFD1 AAA ATPase complex	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	HDA more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in nuclear membrane	IEA Inferred from Electronic Annotation more info
located_in nuclear outer membrane-endoplasmic reticulum membrane network	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	HDA more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info
part_of replisome	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: nuclear protein localization protein 4

NP_009729.1

Substrate-recruiting cofactor of the Cdc48p-Npl4p-Ufd1p segregase; K48-specific Ub chain binding receptor that assists Cdc48p in the dislocation of misfolded, polyubiquitinated ERAD substrates destined for proteasomal degradation; role in regulated destruction of ER membrane proteins, like HMG-CoA reductase (Hmg1/2p), cytosolic proteins (Fbp1p) and mislocalized proteins (Cse4p); mobilizes membrane-bound transcription factors by regulated Ub/proteasome-dependent processing; contains a UBX domain

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NC_001134.8 Reference assembly

Range

576344..578086 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001178518.1 → NP_009729.1 TPA: nuclear protein localization protein 4 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_009729.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VQG6, P33755

UniProtKB/TrEMBL

A6ZLB3, C7GUI5, G2W9H3, N1P8L2

Conserved Domains (1) summary

COG5100
Location:1 → 580

NPL4; Nuclear pore protein [Nuclear structure]