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    PABPC4 poly(A) binding protein cytoplasmic 4 [ Homo sapiens (human) ]

    Gene ID: 8761, updated on 5-May-2024

    Summary

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    Official Symbol
    PABPC4provided by HGNC
    Official Full Name
    poly(A) binding protein cytoplasmic 4provided by HGNC
    Primary source
    HGNC:HGNC:8557
    See related
    Ensembl:ENSG00000090621 MIM:603407; AllianceGenome:HGNC:8557
    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
    APP1; APP-1; PABP4; iPABP
    Summary
    Poly(A)-binding proteins (PABPs) bind to the poly(A) tail present at the 3-prime ends of most eukaryotic mRNAs. PABPC4 or IPABP (inducible PABP) was isolated as an activation-induced T-cell mRNA encoding a protein. Activation of T cells increased PABPC4 mRNA levels in T cells approximately 5-fold. PABPC4 contains 4 RNA-binding domains and proline-rich C terminus. PABPC4 is localized primarily to the cytoplasm. It is suggested that PABPC4 might be necessary for regulation of stability of labile mRNA species in activated T cells. PABPC4 was also identified as an antigen, APP1 (activated-platelet protein-1), expressed on thrombin-activated rabbit platelets. PABPC4 may also be involved in the regulation of protein translation in platelets and megakaryocytes or may participate in the binding or stabilization of polyadenylates in platelet dense granules. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. This protein has also been found to interact with coronavirus nucleocapsid proteins and is thought to inhibit coronavirus replication. [provided by RefSeq, Nov 2021]
    Annotation information
    Note: This gene has been reviewed for its involvement in coronavirus biology, and is involved in immune response or antiviral activity.
    Expression
    Ubiquitous expression in testis (RPKM 55.5), ovary (RPKM 46.1) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    Location:
    1p34.3
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (39560816..39576790, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (39429194..39445168, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (40026488..40042462, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene bone morphogenetic protein 8a Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:39988287-39988788 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:39988789-39989288 Neighboring gene 3-oxoacid CoA-transferase 2 pseudogene 1 Neighboring gene peptidylprolyl isomerase E like (pseudogene) Neighboring gene PABPC4 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:40036267-40036768 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:40036769-40037268 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 812 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 813 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 814 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 703 Neighboring gene small nucleolar RNA, H/ACA box 55 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 704 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 705 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_7951 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_7954 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_7957 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 706 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 707 Neighboring gene hes related family bHLH transcription factor with YRPW motif like Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 708 Neighboring gene Sharpr-MPRA regulatory region 4263 Neighboring gene 5'-nucleotidase, cytosolic IA Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 709

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Gender-specific association between the cytoplasmic poly(A) binding protein 4 rs4660293 single nucleotide polymorphism and serum lipid levels. Wu J, et al. Mol Med Rep, 2015 Sep. PMID 26005159, Free PMC Article
    2. Cytoplasmic poly(A) binding protein 4 is highly expressed in human colorectal cancer and correlates with better prognosis. Liu D, et al. J Genet Genomics, 2012 Aug 20. PMID 22884093
    3. Importin alpha-mediated nuclear import of cytoplasmic poly(A) binding protein occurs as a direct consequence of cytoplasmic mRNA depletion. Kumar GR, et al. Mol Cell Biol, 2011 Aug. PMID 21646427, Free PMC Article
    4. Identification and structure of activated-platelet protein-1, a protein with RNA-binding domain motifs that is expressed by activated platelets. Houng AK, et al. Eur J Biochem, 1997 Jan 15. PMID 9030741
    5. iPABP, an inducible poly(A)-binding protein detected in activated human T cells. Yang H, et al. Mol Cell Biol, 1995 Dec. PMID 8524242, Free PMC Article

    See all (222) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. PABPC4 Broadly Inhibits Coronavirus Replication by Degrading Nucleocapsid Protein through Selective Autophagy.
      Title: PABPC4 Broadly Inhibits Coronavirus Replication by Degrading Nucleocapsid Protein through Selective Autophagy.
    2. A novel long non-coding RNA RP11-286H15.1 represses hepatocellular carcinoma progression by promoting ubiquitination of PABPC4.
      Title: A novel long non-coding RNA RP11-286H15.1 represses hepatocellular carcinoma progression by promoting ubiquitination of PABPC4.
    3. Gene variants of coagulation related proteins that interact with SARS-CoV-2.
      Title: Gene variants of coagulation related proteins that interact with SARS-CoV-2.
    4. The PABPC4 rs4660293 SNP is associated with serum lipid levels.
      Title: Gender-specific association between the cytoplasmic poly(A) binding protein 4 rs4660293 single nucleotide polymorphism and serum lipid levels.
    5. although function of PABPN1 may be compensated by nuclear translocation of PABP4 and perhaps by increase the cytoplasmic abundance of PABP5, these were not sufficient to prevent apoptosis of cells. PABPN1 may have an anti apoptotic role in mammalian cells
      Title: Depletion of nuclear poly(A) binding protein PABPN1 produces a compensatory response by cytoplasmic PABP4 and PABP5 in cultured human cells.
    6. PABPC4 is highly expressed in human colorectal cancer.
      Title: Cytoplasmic poly(A) binding protein 4 is highly expressed in human colorectal cancer and correlates with better prognosis.
    7. Nuclear relocalisation of cytoplasmic poly(A)-binding proteins PABP1 and PABP4 in response to UV irradiation reveals mRNA-dependent export
      Title: Nuclear relocalisation of cytoplasmic poly(A)-binding proteins PABP1 and PABP4 in response to UV irradiation reveals mRNA-dependent export of metazoan PABPs.
    8. RNA binding masks nuclear import signals within the cytoplasmic poly(A) binding protein RNA recognition motifs, thereby ensuring ef fi cient cytoplasmic retention of this protein in normal cells
      Title: Importin alpha-mediated nuclear import of cytoplasmic poly(A) binding protein occurs as a direct consequence of cytoplasmic mRNA depletion.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Biological, clinical and population relevance of 95 loci for blood lipids.
    EBI GWAS Catalog
    Discovery and refinement of loci associated with lipid levels.
    EBI GWAS Catalog
    Meta-analysis of genome-wide association studies in >80 000 subjects identifies multiple loci for C-reactive protein levels.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify cytoplasmic poly(A) binding protein 4 (PABPC4), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify cytoplasmic poly(A) binding protein 4 (PABPC4), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Nef nef Tandem affinity purification and mass spectrometry analysis identify cytoplasmic poly(A) binding protein 4 (PABPC4), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify cytoplasmic poly(A) binding protein 4 (PABPC4), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    retropepsin gag-pol HIV-1 PR-induced PABP cleavage is involved in the inhibition of poly(A)-dependent translation. However, PABP cleavage has little impact on the translation of polyadenylated encephalomyocarditis virus internal ribosome entry site-containing mRNAs PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ43938

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables mRNA 3'-UTR binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables poly(A) binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables poly(A) binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    NOT enables poly(C) RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables poly(U) RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables poly(U) RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA catabolic process TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in RNA processing TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in blood coagulation TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in myeloid cell development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of mRNA stability IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in translation TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in cytoplasmic stress granule IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasmic stress granule IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of ribonucleoprotein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    polyadenylate-binding protein 4
    Names
    PABP-4
    activated-platelet protein 1
    inducible poly(A)-binding protein
    poly(A) binding protein, cytoplasmic 4 (inducible form)
    poly(A)-binding protein 4

    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)

    1. NM_001135653.2 → NP_001129125.1  polyadenylate-binding protein 4 isoform 1

      See identical proteins and their annotated locations for NP_001129125.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      BC029969, BC094755
      Consensus CDS
      CCDS44115.1
      UniProtKB/TrEMBL
      Q6IQ30
      Related
      ENSP00000361949.3, ENST00000372858.8
      Conserved Domains (1) summary
      TIGR01628
      Location:11 → 640
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family

    2. NM_001135654.2 → NP_001129126.1  polyadenylate-binding protein 4 isoform 3

      See identical proteins and their annotated locations for NP_001129126.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an in-frame coding exon, as compared to variant 1. The resulting isoform (3) lacks an internal segment, as compared to isoform 1.
      Source sequence(s)
      BC029969, BC065540, DB455681
      Consensus CDS
      CCDS44114.1
      UniProtKB/TrEMBL
      A0A7I2V4L7
      Related
      ENSP00000361947.3, ENST00000372856.7
      Conserved Domains (1) summary
      TIGR01628
      Location:11 → 611
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family

    3. NM_003819.4 → NP_003810.1  polyadenylate-binding protein 4 isoform 2

      See identical proteins and their annotated locations for NP_003810.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an in-frame segment in the coding region, as compared to variant 1. The resulting isoform 2 lacks an internal segment, as compared to isoform 1.
      Source sequence(s)
      BC029969, BC094755, DB455681, U33818
      Consensus CDS
      CCDS438.1
      UniProtKB/Swiss-Prot
      B1ANQ8, Q13310, Q4VC03, Q6P0N3
      UniProtKB/TrEMBL
      Q6IQ30
      Related
      ENSP00000361948.3, ENST00000372857.7
      Conserved Domains (1) summary
      TIGR01628
      Location:11 → 624
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      39560816..39576790 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      39429194..39445168 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q13310.1 GenPept UniProtKB/Swiss-Prot:Q13310

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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