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    NUP153 nucleoporin 153 [ Homo sapiens (human) ]

    Gene ID: 9972, updated on 9-Dec-2024

    Summary

    Official Symbol
    NUP153provided by HGNC
    Official Full Name
    nucleoporin 153provided by HGNC
    Primary source
    HGNC:HGNC:8062
    See related
    Ensembl:ENSG00000124789 MIM:603948; AllianceGenome:HGNC:8062
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See NUP153 in Genome Data Viewer
    Location:
    6p22.3
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (17615037..17706925, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (17487223..17579176, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (17615268..17707156, complement)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724591 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16964 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:17601938-17602438 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:17602439-17602939 Neighboring gene MPRA-validated peak5701 silencer Neighboring gene MPRA-validated peak5703 silencer Neighboring gene family with sequence similarity 8 member A1 Neighboring gene RNA, U6 small nuclear 190, pseudogene Neighboring gene MPRA-validated peak5705 silencer Neighboring gene MPRA-validated peak5706 silencer Neighboring gene Sharpr-MPRA regulatory region 5716 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:17685707-17686206 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24114 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:17704301-17704470 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16965 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:17706574-17707268 Neighboring gene NUP153 antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 4388 Neighboring gene RNA, 5S ribosomal pseudogene 204 Neighboring gene uncharacterized LOC124901554

    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

    EBI GWAS Catalog

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

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables molecular condensate scaffold activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables nuclear localization sequence binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein-membrane adaptor activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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 structural constituent of nuclear pore IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in RNA export from nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in amyloid fibril formation IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    involved_in mRNA transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of RNA export from nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in nuclear pore complex assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in nucleocytoplasmic transport NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in protein import into nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in symbiont entry into host cell IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in viral penetration into host nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in host cell IEA
    Inferred from Electronic Annotation
    more info
     
    located_in membrane IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    located_in nuclear envelope IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nuclear inclusion body IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nuclear membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nuclear periphery IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of nuclear pore IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of nuclear pore IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of nuclear pore NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of nuclear pore nuclear basket IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in 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)

    NEW Try the new Transcript table

    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_001278209.2NP_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, AL138724, AL597150, BC052965
      Consensus CDS
      CCDS64359.1
      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_001278210.2NP_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, AL138724, AL597150, DA856239
      Consensus CDS
      CCDS75407.1
      Related
      ENSP00000478627.1, ENST00000613258.4
      Conserved Domains (5) summary
      sd00025
      Location:620639
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam10599
      Location:13441433
      Nup_retrotrp_bd; Retro-transposon transporting motif
      pfam00641
      Location:681709
      zf-RanBP; Zn-finger in Ran binding protein and others
      pfam08604
      Location:113588
      Nup153; Nucleoporin Nup153-like
      pfam15967
      Location:12231399
      Nucleoporin_FG2; Nucleoporin FG repeated region
    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
      B4DIK2, E7EPX5, F6QR24, P49790, Q4LE47, Q5T9I7, Q7Z743
      Related
      ENSP00000262077.3, ENST00000262077.3
      Conserved Domains (5) summary
      sd00025
      Location:662681
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam10599
      Location:13861475
      Nup_retrotrp_bd; Retro-transposon transporting motif
      pfam00641
      Location:723751
      zf-RanBP; Zn-finger in Ran binding protein and others
      pfam08604
      Location:113621
      Nup153; Nucleoporin Nup153-like
      pfam15967
      Location:12651441
      Nucleoporin_FG2; Nucleoporin FG repeated region

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      17615037..17706925 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      17487223..17579176 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)