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NUP42 nucleoporin 42 [ Homo sapiens (human) ]

Gene ID: 11097, updated on 3-May-2020

Summary

Official Symbol
NUP42provided by HGNC
Official Full Name
nucleoporin 42provided by HGNC
Primary source
HGNC:HGNC:17010
See related
Ensembl:ENSG00000136243
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CG1; hCG1; NLP-1; NLP_1; NUPL2
Expression
Ubiquitous expression in testis (RPKM 9.0), lymph node (RPKM 6.4) and 25 other tissues See more
Orthologs

Genomic context

See NUP42 in Genome Data Viewer
Location:
7p15.3
Exon count:
8
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (23181298..23201011)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (23221446..23240630)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene KLHL7 divergent transcript Neighboring gene kelch like family member 7 Neighboring gene adenylate kinase 3 pseudogene 3 Neighboring gene uncharacterized LOC101927890 Neighboring gene glycoprotein nmb

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Rev rev NLP-1 interacts with CRM-1 (exportin 1), one of the cellular factors that binds to Rev and is required for Rev-mediated nuclear export of HIV-1 mRNA PubMed
rev The central FG repeat-containing region (amino acids 213-380) of NLP-1, also known as hCG1, specifically interacts with the Rev nuclear export signal (amino acids 75-83) PubMed
Vpr vpr HIV-1 (NL43) Vpr K27M mutant demonstrates decreased or absent TNF production from MT4C5 cells suggesting that hCG1-Vpr interaction affects TNF production from HIV-1 infected cells PubMed
vpr HIV-1 Vpr L23F and K27M mutants are specifically altered for their binding to hCG1 PubMed
vpr Nucleoporin CG1 (hCG1; nucleoporin-like protein 1; NLP-1) interacts with HIV-1 Vpr to mediate the docking of Vpr at the nuclear envelope which may contribute to the disruption of the nuclear envelope and to the nuclear import of viral DNA by Vpr PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
nuclear export signal receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear export signal receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
intracellular transport of virus TAS
Traceable Author Statement
more info
 
mRNA export from nucleus TAS
Traceable Author Statement
more info
 
protein export from nucleus IGI
Inferred from Genetic Interaction
more info
PubMed 
protein sumoylation TAS
Traceable Author Statement
more info
 
regulation of cellular response to heat TAS
Traceable Author Statement
more info
 
regulation of gene silencing by miRNA TAS
Traceable Author Statement
more info
 
regulation of glycolytic process TAS
Traceable Author Statement
more info
 
tRNA export from nucleus TAS
Traceable Author Statement
more info
 
viral process TAS
Traceable Author Statement
more info
 
viral transcription TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 
host cell IEA
Inferred from Electronic Annotation
more info
 
colocalizes_with nuclear envelope IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
colocalizes_with nuclear envelope IDA
Inferred from Direct Assay
more info
PubMed 
nuclear membrane IEA
Inferred from Electronic Annotation
more info
 
nuclear pore IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
nucleoporin NUP42
Names
H_RG271G13.9
NUP42 homolog
nucleoporin hCG1
nucleoporin like 2
nucleoporin-like protein 1
nucleoporin-like protein 2

NCBI Reference Sequences (RefSeq)

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_001370443.1NP_001357372.1  nucleoporin NUP42 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC005082
    Related
    ENSP00000401475.1, ENST00000413919.1
    Conserved Domains (2) summary
    smart00356
    Location:123
    ZnF_C3H1; zinc finger
    pfam15967
    Location:238340
    Nucleoporin_FG2; Nucleoporin FG repeated region
  2. NM_001370444.1NP_001357373.1  nucleoporin NUP42 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC005082
    Conserved Domains (2) summary
    smart00356
    Location:123
    ZnF_C3H1; zinc finger
    pfam15967
    Location:210312
    Nucleoporin_FG2; Nucleoporin FG repeated region
  3. NM_001370445.1NP_001357374.1  nucleoporin NUP42 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC005082
    Conserved Domains (1) summary
    pfam15967
    Location:90192
    Nucleoporin_FG2; Nucleoporin FG repeated region
  4. NM_001370446.1NP_001357375.1  nucleoporin NUP42 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC005082
  5. NM_007342.3NP_031368.1  nucleoporin NUP42 isoform 2

    See identical proteins and their annotated locations for NP_031368.1

    Status: VALIDATED

    Source sequence(s)
    AI352214, U97198
    Consensus CDS
    CCDS5379.1
    UniProtKB/Swiss-Prot
    O15504
    Related
    ENSP00000258742.5, ENST00000258742.10
    Conserved Domains (1) summary
    smart00356
    Location:123
    ZnF_C3H1; zinc finger

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

    Range
    23181298..23201011
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005249593.4XP_005249650.1  nucleoporin NUP42 isoform X2

    See identical proteins and their annotated locations for XP_005249650.1

    Conserved Domains (1) summary
    PRK13875
    Location:157252
    PRK13875; conjugal transfer protein TrbL; Provisional
  2. XM_017011714.2XP_016867203.1  nucleoporin NUP42 isoform X3

    Conserved Domains (1) summary
    pfam15967
    Location:90192
    Nucleoporin_FG2; Nucleoporin FG repeated region
  3. XM_011515104.3XP_011513406.1  nucleoporin NUP42 isoform X2

    See identical proteins and their annotated locations for XP_011513406.1

    Conserved Domains (1) summary
    PRK13875
    Location:157252
    PRK13875; conjugal transfer protein TrbL; Provisional
  4. XM_024446647.1XP_024302415.1  nucleoporin NUP42 isoform X3

    Conserved Domains (1) summary
    pfam15967
    Location:90192
    Nucleoporin_FG2; Nucleoporin FG repeated region

RNA

  1. XR_001744547.2 RNA Sequence

    Related
    ENST00000438012.5
  2. XR_001744548.2 RNA Sequence

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