Nup62 nucleoporin 62 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nup62provided by RGD
Official Full Name: nucleoporin 62provided by RGD
Primary source: RGD:619938
See related: EnsemblRapid:ENSRNOG00000048733 AllianceGenome:RGD:619938
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Np62
Summary: Enables kinesin binding activity. A structural constituent of nuclear pore. Involved in several processes, including protein import into nucleus; regulation of protein import into nucleus; and spermatogenesis. Located in annulate lamellae and nuclear membrane. Part of nuclear pore. Human ortholog(s) of this gene implicated in primary biliary cholangitis and striatonigral degeneration. Orthologous to human NUP62 (nucleoporin 62). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 126.7), Testes (RPKM 108.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q22

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (104435532..104451392)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (95298995..95314902)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (100811140..100827119)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

S-acylation of p62 promotes p62 droplet recruitment into autophagosomes in mammalian autophagy.
Title: S-acylation of p62 promotes p62 droplet recruitment into autophagosomes in mammalian autophagy.
Data suggest that neuroprotection via ghrelin involves up-regulation of Bcl-2 (B cell lymphoma 2 associated oncogene) and p-62/Sqstm1 (ubiquitin-binding protein p62) plus down-regulation of LC3-II (microtubule-associated protein 1 light chain 3) and Beclin-1. Studies were conducted in adult hippocampal neural stem cells in primary culture.
Title: Ghrelin protects adult rat hippocampal neural stem cells from excessive autophagy during oxygen-glucose deprivation.
complexes of Nup62 suggest the crucial role of the coiled-coil motifs in providing plasticity to various modular assemblies
Title: The Nup62 Coiled-Coil Motif Provides Plasticity for Triple-Helix Bundle Formation.
we carried out solution analysis utilizing the entire ordered regions of Nup62, Nup54, and Nup58, and demonstrate that they form a dynamic "triple complex"
Title: Ordered Regions of Channel Nucleoporins Nup62, Nup54, and Nup58 Form Dynamic Complexes in Solution.
Role for NUP62 depletion and PYK2 redistribution in dendritic retraction resulting from chronic stress
Title: Role for NUP62 depletion and PYK2 redistribution in dendritic retraction resulting from chronic stress.
A 1:1:1 stoichiometry of the Nup62 complex, where Nup54 is central with direct binding to Nup62 and Nup58.
Title: The stoichiometry of the nucleoporin 62 subcomplex of the nuclear pore in solution.
Study reports the crystal structures of the Nup54-Nup58 and Nup62-Nup54 interacting domains and reconstruct the molecular architecture of the NPC transport channel.
Title: Molecular architecture of the transport channel of the nuclear pore complex.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables Hsp70 protein binding	ISO Inferred from Sequence Orthology more info
enables Hsp90 protein binding	ISO Inferred from Sequence Orthology more info
enables PTB domain binding	ISO Inferred from Sequence Orthology more info
enables SH2 domain binding	ISO Inferred from Sequence Orthology more info
enables SH2 domain binding	ISS Inferred from Sequence or Structural Similarity more info
enables kinesin binding	IPI Inferred from Physical Interaction more info	PubMed
enables nuclear thyroid hormone receptor binding	ISS Inferred from Sequence or Structural Similarity more info
enables phospholipid binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IPI Inferred from Physical Interaction more info	PubMed
enables signaling receptor complex adaptor activity	ISO Inferred from Sequence Orthology more info
enables signaling receptor complex adaptor activity	ISS Inferred from Sequence or Structural Similarity more info
enables structural constituent of nuclear pore	IBA Inferred from Biological aspect of Ancestor more info
enables structural constituent of nuclear pore	IDA Inferred from Direct Assay more info	PubMed
enables ubiquitin binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in RNA export from nucleus	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell surface receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in cell surface receptor signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within cellular senescence	ISO Inferred from Sequence Orthology more info
involved_in centriole assembly	ISO Inferred from Sequence Orthology more info
involved_in centrosome cycle	ISO Inferred from Sequence Orthology more info
involved_in mRNA transport	IEA Inferred from Electronic Annotation more info
involved_in mitotic centrosome separation	ISO Inferred from Sequence Orthology more info
involved_in mitotic metaphase chromosome alignment	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of Ras protein signal transduction	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of epidermal growth factor receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of programmed cell death	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of programmed cell death	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of canonical NF-kappaB signal transduction	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of centriole replication	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitotic cytokinetic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitotic nuclear division	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein localization to centrosome	ISO Inferred from Sequence Orthology more info
involved_in protein import into nucleus	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein import into nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of mitotic spindle organization	ISO Inferred from Sequence Orthology more info
involved_in regulation of protein import into nucleus	IDA Inferred from Direct Assay more info	PubMed
involved_in spermatogenesis	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in Flemming body	ISO Inferred from Sequence Orthology more info
located_in annulate lamellae	IDA Inferred from Direct Assay more info	PubMed
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in mitotic spindle	ISO Inferred from Sequence Orthology more info
located_in nuclear envelope	ISO Inferred from Sequence Orthology more info
located_in nuclear membrane	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear membrane	ISO Inferred from Sequence Orthology more info
part_of nuclear pore	IDA Inferred from Direct Assay more info	PubMed
part_of nuclear pore	ISO Inferred from Sequence Orthology more info
part_of nuclear pore	ISS Inferred from Sequence or Structural Similarity more info
part_of nuclear pore central transport channel	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed
part_of ribonucleoprotein complex	ISO Inferred from Sequence Orthology more info
located_in spindle pole	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: nuclear pore glycoprotein p62

Names: 62 kDa nucleoporin; nuclear pore glycoprotein 62; nucleoporin Nup62

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)

NM_023098.2 → NP_075586.1 nuclear pore glycoprotein p62

See identical proteins and their annotated locations for NP_075586.1

Status: VALIDATED

Source sequence(s)

BC128709, CK600248

UniProtKB/Swiss-Prot

A2VCW0, P17955

UniProtKB/TrEMBL

A6JAS7

Related

ENSRNOP00000081212.1, ENSRNOT00000117253.2

Conserved Domains (3) summary

COG1196
Location:366 → 520

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

pfam05064
Location:322 → 432

Nsp1_C; Nsp1-like C-terminal region

pfam15967
Location:1 → 189

Nucleoporin_FG2; Nucleoporin FG repeated region

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

NC_086019.1 Reference GRCr8

Range

104435532..104451392

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006229150.5 → XP_006229212.1 nuclear pore glycoprotein p62 isoform X1

See identical proteins and their annotated locations for XP_006229212.1

UniProtKB/Swiss-Prot

A2VCW0, P17955

UniProtKB/TrEMBL

A6JAS7

Related

ENSRNOP00000100099.1, ENSRNOT00000123208.1

Conserved Domains (3) summary

COG1196
Location:366 → 520

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

pfam05064
Location:322 → 432

Nsp1_C; Nsp1-like C-terminal region

pfam15967
Location:1 → 189

Nucleoporin_FG2; Nucleoporin FG repeated region
XM_006229151.5 → XP_006229213.1 nuclear pore glycoprotein p62 isoform X1

See identical proteins and their annotated locations for XP_006229213.1

UniProtKB/Swiss-Prot

A2VCW0, P17955

UniProtKB/TrEMBL

A6JAS7

Related

ENSRNOP00000103918.1, ENSRNOT00000155881.1

Conserved Domains (3) summary

COG1196
Location:366 → 520

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

pfam05064
Location:322 → 432

Nsp1_C; Nsp1-like C-terminal region

pfam15967
Location:1 → 189

Nucleoporin_FG2; Nucleoporin FG repeated region