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NUP153 nucleoporin 153 [ Homo sapiens (human) ]

Gene ID: 9972, updated on 13-Mar-2020

Summary

Official Symbol
NUP153provided by HGNC
Official Full Name
nucleoporin 153provided by HGNC
Primary source
HGNC:HGNC:8062
See related
Ensembl:ENSG00000124789 MIM:603948
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
N153; HNUP153
Summary
Nuclear pore complexes regulate the transport of macromolecules between the nucleus and cytoplasm. They are composed of at least 100 different polypeptide subunits, many of which belong to the nucleoporin family. Nucleoporins are glycoproteins found in nuclear pores and contain characteristic pentapeptide XFXFG repeats as well as O-linked N-acetylglucosamine residues oriented towards the cytoplasm. The protein encoded by this gene has three distinct domains: a N-terminal region containing a pore targeting and an RNA-binding domain domain, a central region containing multiple zinc finger motifs, and a C-terminal region containing multiple XFXFG repeats. Alternative splicing results in multiple transcript variants of this gene. [provided by RefSeq, May 2013]
Expression
Ubiquitous expression in testis (RPKM 19.5), bone marrow (RPKM 18.1) and 25 other tissues See more
Orthologs

Genomic context

See NUP153 in Genome Data Viewer
Location:
6p22.3
Exon count:
24
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (17615035..17706925, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (17615266..17707065, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724591 Neighboring gene family with sequence similarity 8 member A1 Neighboring gene RNA, U6 small nuclear 190, pseudogene Neighboring gene uncharacterized LOC105374952 Neighboring gene RNA, 5S ribosomal pseudogene 204 Neighboring gene kinesin family member 13A Neighboring gene uncharacterized LOC105374953

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?

Phenotypes

NHGRI GWAS Catalog

Description
Many sequence variants affecting diversity of adult human height.
NHGRI GWA Catalog
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 replication requires amino acids 896-1475 in NUP153; deletion of the c-terminal domain of NUP153 amino acid stretch disrupts viral infectivity PubMed
HIV-1 replication requires NUP153 for import into the nucleus as shown through shRNA treatment PubMed
Knockdown of CPSF6, TNPO3, or NUP153 through siRNA leads to decreased CA and proviral DNA nuclear entry PubMed
Depletion of nucleoporin 153kDa (NUP153) by shRNA inhibits HIV-1 infection in human Jurkat lymphocytes PubMed
HIV-1 requires NUP153 and TPR for infectivity as shown by shRNA knockdown experiments utilizing HeLa-derived P4-CCR5 cells and jurkat T cells PubMed
shRNA knockdown of NUP153 renders cells less permissive to HIV-1 WT; HIV-1 is enhanced by NUP153 PubMed
Knockdown of nucleoporin 153kDa (NUP153) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed
Knockdown of nucleoporin 153kDa (NUP153) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Protein interactions

Protein Gene Interaction Pubs
Rev rev antibodies to nup153 can block the nuclear export of Rev as well as Rev-dependent RNA export PubMed
rev nup153 is involved in Rev-mediated nuclear export of HIV-1 mRNA through an interaction with eukaryotic initiation factor 5A (eIF-5A) which binds to Rev PubMed
Tat tat Interaction of HIV-1 Tat with Nup153 in T-cells is identified by a proteomic strategy based on affinity chromatography PubMed
Vpr vpr HIV-1 Vpr co-immunoprecipitates in vitro-translated human Nup153 PubMed
capsid gag HIV-1 CA binds NUP153; HIV-1 CA mutations S41A, Q67H, V165I and V172I in combination abrogate this interaction PubMed
gag HIV-1 CA interacts with NUP153, which is required for replication PubMed
gag Full-length NUP153 binids to the CA hexamer with lower affinity compared with the CPSF6 peptide PubMed
gag Amino-acid residues 1199-1475 in the C-terminal phenylalanine-glycine motifs of NUP153 are involved in the binding to HIV-1 CA. Mutation of CA Asn74 to Ala diminishes the binding, while mutation to Asp enhances the binding PubMed
gag Nucleoporins NUP153 and NUP98 bind in vitro assembled HIV-1 CA-NC complexes, suggesting that both nucleoporins bind the HIV-1 core during the early stages of infection PubMed
gag HIV-1 CA mutant N74D and depletion of NUP153 and LEDGF/p75 significantly reduce HIV-1 DNA integration into gene-rich regions of chromosomes and gene bodies PubMed
integrase gag-pol Depletion of the nuclear pore complex component NUP153 by RNAi blocks HIV-1 nuclear import and integration efficiency as assayed by the appearance of circular viral DNAs, suggesting HIV-1 IN interacts with NUP153 in cells PubMed
gag-pol NUP153 dependency during HIV-1 infection is dependent on HIV-1 integrase (IN) PubMed
gag-pol NTF2 is enriched at the nuclear envelope and interacts with NUP153, When added in excess to the import assay, NUP153C inhibited the nuclear import of IN. PubMed
gag-pol HIV-1 IN binds directly to nucleoporin NUP153 in cells. The binding involves the C-terminal FxFG-rich region of NUP153 PubMed
nucleocapsid gag Nucleoporins NUP153 and NUP98 bind in vitro assembled HIV-1 CA-NC complexes, suggesting that both nucleoporins bind the HIV-1 core during the early stages of infection 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
DNA binding IEA
Inferred from Electronic Annotation
more info
 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
nuclear localization sequence binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein membrane anchor IMP
Inferred from Mutant Phenotype
more info
PubMed 
structural constituent of nuclear pore IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
structural constituent of nuclear pore IDA
Inferred from Direct Assay
more info
PubMed 
structural constituent of nuclear pore IMP
Inferred from Mutant Phenotype
more info
PubMed 
Process Evidence Code Pubs
RNA export from nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
intracellular transport of virus TAS
Traceable Author Statement
more info
 
mRNA export from nucleus TAS
Traceable Author Statement
more info
 
negative regulation of RNA export from nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nuclear pore complex assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein import into nucleus IBA
Inferred from Biological aspect of Ancestor
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 entry into host cell IEA
Inferred from Electronic Annotation
more info
 
viral penetration into host nucleus IEA
Inferred from Electronic Annotation
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
 
host cell IEA
Inferred from Electronic Annotation
more info
 
membrane IMP
Inferred from Mutant Phenotype
more info
PubMed 
nuclear inclusion body IDA
Inferred from Direct Assay
more info
PubMed 
nuclear membrane IDA
Inferred from Direct Assay
more info
PubMed 
nuclear periphery IDA
Inferred from Direct Assay
more info
PubMed 
nuclear pore IDA
Inferred from Direct Assay
more info
PubMed 
nuclear pore central transport channel IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear pore nuclear basket IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear pore nuclear basket IDA
Inferred from Direct Assay
more info
PubMed 
nucleolus IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
nuclear pore complex protein Nup153
Names
153 kDa nucleoporin
nuclear pore complex protein hnup153
nucleoporin 153kD
nucleoporin 153kDa
nucleoporin Nup153

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_001278209.1NP_001265138.1  nuclear pore complex protein Nup153 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AB210024, AI948895, AK295644, AL597150, BC052965, CB217525
    Consensus CDS
    CCDS64359.1
    UniProtKB/Swiss-Prot
    P49790
    Related
    ENSP00000444029.1, ENST00000537253.5
    Conserved Domains (4) summary
    sd00025
    Location:693712
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:754782
    zf-RanBP; Zn-finger in Ran binding protein and others
    pfam08604
    Location:113660
    Nup153; Nucleoporin Nup153-like
    pfam10599
    Location:14171506
    Nup_retrotrp_bd; Retro-transposon transporting motif
  2. NM_001278210.1NP_001265139.1  nuclear pore complex protein Nup153 isoform 3

    See identical proteins and their annotated locations for NP_001265139.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks two alternate in-frame exons in the 5' coding region compared to variant 1. It encodes isoform 3 which is shorter than isoform 1.
    Source sequence(s)
    AB210024, AI948895, AL597150, CB217525, DA856239
    Consensus CDS
    CCDS75407.1
    UniProtKB/Swiss-Prot
    P49790
    Related
    ENSP00000478627.1, ENST00000613258.4
    Conserved Domains (4) summary
    sd00025
    Location:620639
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:681709
    zf-RanBP; Zn-finger in Ran binding protein and others
    pfam08604
    Location:113588
    Nup153; Nucleoporin Nup153-like
    pfam10599
    Location:13441433
    Nup_retrotrp_bd; Retro-transposon transporting motif
  3. NM_005124.4NP_005115.2  nuclear pore complex protein Nup153 isoform 2

    See identical proteins and their annotated locations for NP_005115.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region compared to variant 1. It encodes isoform 2 which is shorter than isoform 1.
    Source sequence(s)
    AB210024, AI948895, AL138724, AL597150, BC052965
    Consensus CDS
    CCDS4541.1
    UniProtKB/Swiss-Prot
    P49790
    Related
    ENSP00000262077.2, ENST00000262077.2
    Conserved Domains (4) summary
    sd00025
    Location:662681
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:723751
    zf-RanBP; Zn-finger in Ran binding protein and others
    pfam08604
    Location:113629
    Nup153; Nucleoporin Nup153-like
    pfam10599
    Location:13861475
    Nup_retrotrp_bd; Retro-transposon transporting motif

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_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    17615035..17706925 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017011594.2XP_016867083.1  nuclear pore complex protein Nup153 isoform X3

  2. XM_005249507.3XP_005249564.1  nuclear pore complex protein Nup153 isoform X2

    Conserved Domains (4) summary
    sd00025
    Location:644663
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:705733
    zf-RanBP; Zn-finger in Ran binding protein and others
    pfam08604
    Location:113611
    Nup153; Nucleoporin Nup153-like
    pfam10599
    Location:13681457
    Nup_retrotrp_bd; Retro-transposon transporting motif
  3. XM_006715290.3XP_006715353.1  nuclear pore complex protein Nup153 isoform X1

    Conserved Domains (4) summary
    sd00025
    Location:656675
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:717745
    zf-RanBP; Zn-finger in Ran binding protein and others
    pfam08604
    Location:113623
    Nup153; Nucleoporin Nup153-like
    pfam10599
    Location:13801469
    Nup_retrotrp_bd; Retro-transposon transporting motif
  4. XM_011515028.3XP_011513330.1  nuclear pore complex protein Nup153 isoform X4

    Conserved Domains (4) summary
    sd00029
    Location:726745
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:723751
    zf-RanBP; Zn-finger in Ran binding protein and others
    pfam08604
    Location:113629
    Nup153; Nucleoporin Nup153-like
    pfam10599
    Location:13211410
    Nup_retrotrp_bd; Retro-transposon transporting motif
  5. XM_006715291.4XP_006715354.1  nuclear pore complex protein Nup153 isoform X5

    Conserved Domains (3) summary
    sd00029
    Location:726745
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:723751
    zf-RanBP; Zn-finger in Ran binding protein and others
    pfam08604
    Location:113629
    Nup153; Nucleoporin Nup153-like
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