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    PCBP4 poly(rC) binding protein 4 [ Homo sapiens (human) ]

    Gene ID: 57060, updated on 27-Nov-2024

    Summary

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    Official Symbol
    PCBP4provided by HGNC
    Official Full Name
    poly(rC) binding protein 4provided by HGNC
    Primary source
    HGNC:HGNC:8652
    See related
    Ensembl:ENSG00000090097 MIM:608503; AllianceGenome:HGNC:8652
    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
    CBP; LIP4; MCG10
    Summary
    This gene encodes a member of the KH-domain protein subfamily. Proteins of this subfamily, also referred to as alpha-CPs, bind to RNA with a specificity for C-rich pyrimidine regions. Alpha-CPs play important roles in post-transcriptional activities and have different cellular distributions. This gene is induced by the p53 tumor suppressor, and the encoded protein can suppress cell proliferation by inducing apoptosis and cell cycle arrest in G(2)-M. This gene's protein is found in the cytoplasm, yet it lacks the nuclear localization signals found in other subfamily members. Multiple alternatively spliced transcript variants have been described, but the full-length nature for only some has been determined. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in brain (RPKM 22.5), prostate (RPKM 9.4) and 24 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See PCBP4 in Genome Data Viewer
    Location:
    3p21.2
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (51957454..51967466, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (51990373..52000385, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (51991470..52001482, complement)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ribosomal RNA processing 9, U3 small nucleolar RNA binding protein Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:51975282-51975930 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19921 Neighboring gene poly(ADP-ribose) polymerase family member 3 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:51990057-51990645 Neighboring gene G protein-coupled receptor 62 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:51999749-52000312 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:52000313-52000874 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14418 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14419 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14420 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:52002001-52002564 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:52002565-52003126 Neighboring gene abhydrolase domain containing 14B Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:52007254-52008190 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19922 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14424 Neighboring gene ABHD14A-ACY1 readthrough Neighboring gene Sharpr-MPRA regulatory region 207 Neighboring gene abhydrolase domain containing 14A Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:52015181-52015682

    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. MCG10, a novel p53 target gene that encodes a KH domain RNA-binding protein, is capable of inducing apoptosis and cell cycle arrest in G(2)-M. Zhu J, et al. Mol Cell Biol, 2000 Aug. PMID 10891498, Free PMC Article
    2. Regulation of the G2/M transition by p53. Taylor WR, et al. Oncogene, 2001 Apr 5. PMID 11313928
    3. Alpha CP-4, encoded by a putative tumor suppressor gene at 3p21, but not its alternative splice variant alpha CP-4a, is underexpressed in lung cancer. Pio R, et al. Cancer Res, 2004 Jun 15. PMID 15205328
    4. Expression of alpha CP-4 inhibits cell cycle progression and suppresses tumorigenicity of lung cancer cells. Castaño Z, et al. Int J Cancer, 2008 Apr 1. PMID 17973258
    5. Suppression of Poly(rC)-Binding Protein 4 (PCBP4) reduced cisplatin resistance in human maxillary cancer cells. Ito Y, et al. Sci Rep, 2015 Jul 21. PMID 26196957, Free PMC Article

    See all (36) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. PCBP4 plays important roles in the induction of cisplatin resistance in human maxillary cancers.
      Title: Suppression of Poly(rC)-Binding Protein 4 (PCBP4) reduced cisplatin resistance in human maxillary cancer cells.
    2. Observational study of gene-disease association, gene-environment interaction, and pharmacogenomic / toxicogenomic. (HuGE Navigator)
      Title: Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study.
    3. Observational study of gene-disease association. (HuGE Navigator)
      Title: Gene-centric association signals for lipids and apolipoproteins identified via the HumanCVD BeadChip.
    4. expression of alpha CP-4 can inhibit proliferation and tumorigenesis of lung cancer cells, both in vivo and in vitro, by delaying the progression of the cell cycle
      Title: Expression of alpha CP-4 inhibits cell cycle progression and suppresses tumorigenicity of lung cancer cells.
    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

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding HDA PubMed 
    enables RNA binding NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables mRNA 3'-UTR binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of mRNA stability IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of ribonucleoprotein complex IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    poly(rC)-binding protein 4
    Names
    LYST-interacting protein
    RNA binding protein MCG10
    alpha-CP4

    NCBI Reference Sequences (RefSeq)

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    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.

    Genomic

    1. NG_029694.1 RefSeqGene

      Range
      5013..15009
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001174100.2 → NP_001167571.1  poly(rC)-binding protein 4 isoform c

      See identical proteins and their annotated locations for NP_001167571.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR, and includes an additional in-frame exon in the central coding region, compared to variant 1. The encoded isoform (c) is longer than isoform a. Variants 3, 4 and 5 encode the same isoform.
      Source sequence(s)
      AC115284, AK225815, DA074216
      Consensus CDS
      CCDS2839.1
      UniProtKB/Swiss-Prot
      P57723, Q96AH7
      UniProtKB/TrEMBL
      A0A024R304, Q9HCU2
      Related
      ENSP00000417196.1, ENST00000461554.6
      Conserved Domains (2) summary
      cd02396
      Location:103 → 167
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
      pfam00013
      Location:243 → 307
      KH_1; KH domain

    2. NM_001363885.1 → NP_001350814.1  poly(rC)-binding protein 4 isoform d

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) contains an alternate in-frame exon and differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (d) contains an alternate internal segment and has a shorter and distinct C-terminus compared to isoform a.
      Source sequence(s)
      AC115284
      Consensus CDS
      CCDS87085.1
      UniProtKB/TrEMBL
      C9J0A4
      Related
      ENSP00000418925.1, ENST00000471622.5
      Conserved Domains (2) summary
      cd02396
      Location:103 → 167
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
      pfam00013
      Location:243 → 307
      KH_1; KH domain

    3. NM_020418.4 → NP_065151.2  poly(rC)-binding protein 4 isoform a

      See identical proteins and their annotated locations for NP_065151.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the shorter isoform (a). The 5' UTR may be incomplete due to lack of 5'-complete transcript support for this variant, and the presence of alternative splicing choices further upstream.
      Source sequence(s)
      AC115284, BC017098, DA701799
      Consensus CDS
      CCDS2840.2
      UniProtKB/TrEMBL
      A0A024R304, Q9HCU2
      Related
      ENSP00000395030.2, ENST00000428823.6
      Conserved Domains (3) summary
      cd02396
      Location:19 → 80
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
      pfam00013
      Location:200 → 264
      KH_1; KH domain
      cl00098
      Location:103 → 137
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...

    4. NM_033008.3 → NP_127501.1  poly(rC)-binding protein 4 isoform c

      See identical proteins and their annotated locations for NP_127501.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, and includes an additional in-frame exon in the central coding region, compared to variant 1. The encoded isoform (c) is longer than isoform a. Variants 3, 4 and 5 encode the same isoform.
      Source sequence(s)
      AK023993, BU684420, DA074216
      Consensus CDS
      CCDS2839.1
      UniProtKB/Swiss-Prot
      P57723, Q96AH7
      UniProtKB/TrEMBL
      A0A024R304, Q9HCU2
      Related
      ENSP00000348111.2, ENST00000355852.6
      Conserved Domains (2) summary
      cd02396
      Location:103 → 167
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
      pfam00013
      Location:243 → 307
      KH_1; KH domain

    5. NM_033010.2 → NP_127503.1  poly(rC)-binding protein 4 isoform c

      See identical proteins and their annotated locations for NP_127503.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR, and includes an additional in-frame exon in the central coding region, compared to variant 1. The 5' UTR may be incomplete due to lack of 5'-complete transcript support for this variant, and the presence of alternative splicing choices further upstream. The encoded isoform (c) is longer than isoform a. Variants 3, 4 and 5 encode the same isoform.
      Source sequence(s)
      AF176330, BU684420
      Consensus CDS
      CCDS2839.1
      UniProtKB/Swiss-Prot
      P57723, Q96AH7
      UniProtKB/TrEMBL
      A0A024R304, Q9HCU2
      Related
      ENSP00000322341.7, ENST00000322099.11
      Conserved Domains (2) summary
      cd02396
      Location:103 → 167
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
      pfam00013
      Location:243 → 307
      KH_1; KH domain

    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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      51957454..51967466 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047448612.1 → XP_047304568.1  poly(rC)-binding protein 4 isoform X1

    2. XM_005265331.4 → XP_005265388.1  poly(rC)-binding protein 4 isoform X2

      See identical proteins and their annotated locations for XP_005265388.1

      UniProtKB/Swiss-Prot
      P57723, Q96AH7
      UniProtKB/TrEMBL
      A0A024R304, Q9HCU2
      Conserved Domains (2) summary
      cd02396
      Location:103 → 167
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
      pfam00013
      Location:243 → 307
      KH_1; KH domain

    3. XM_047448614.1 → XP_047304570.1  poly(rC)-binding protein 4 isoform X1

    4. XM_047448615.1 → XP_047304571.1  poly(rC)-binding protein 4 isoform X1

    5. XM_047448616.1 → XP_047304572.1  poly(rC)-binding protein 4 isoform X1

    6. XM_047448617.1 → XP_047304573.1  poly(rC)-binding protein 4 isoform X2

      UniProtKB/Swiss-Prot
      P57723, Q96AH7

    7. XM_047448613.1 → XP_047304569.1  poly(rC)-binding protein 4 isoform X1

    8. XM_047448618.1 → XP_047304574.1  poly(rC)-binding protein 4 isoform X2

      UniProtKB/Swiss-Prot
      P57723, Q96AH7

    9. XM_047448622.1 → XP_047304578.1  poly(rC)-binding protein 4 isoform X2

      UniProtKB/Swiss-Prot
      P57723, Q96AH7

    10. XM_006713269.2 → XP_006713332.1  poly(rC)-binding protein 4 isoform X2

      See identical proteins and their annotated locations for XP_006713332.1

      UniProtKB/Swiss-Prot
      P57723, Q96AH7
      UniProtKB/TrEMBL
      A0A024R304, Q9HCU2
      Conserved Domains (2) summary
      cd02396
      Location:103 → 167
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
      pfam00013
      Location:243 → 307
      KH_1; KH domain

    11. XM_047448621.1 → XP_047304577.1  poly(rC)-binding protein 4 isoform X5

    12. XM_047448619.1 → XP_047304575.1  poly(rC)-binding protein 4 isoform X3

    13. XM_047448620.1 → XP_047304576.1  poly(rC)-binding protein 4 isoform X4

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      51990373..52000385 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054347332.1 → XP_054203307.1  poly(rC)-binding protein 4 isoform X1

    2. XM_054347337.1 → XP_054203312.1  poly(rC)-binding protein 4 isoform X2

      UniProtKB/Swiss-Prot
      P57723, Q96AH7

    3. XM_054347334.1 → XP_054203309.1  poly(rC)-binding protein 4 isoform X1

    4. XM_054347335.1 → XP_054203310.1  poly(rC)-binding protein 4 isoform X1

    5. XM_054347336.1 → XP_054203311.1  poly(rC)-binding protein 4 isoform X1

    6. XM_054347339.1 → XP_054203314.1  poly(rC)-binding protein 4 isoform X2

      UniProtKB/Swiss-Prot
      P57723, Q96AH7

    7. XM_054347333.1 → XP_054203308.1  poly(rC)-binding protein 4 isoform X1

    8. XM_054347340.1 → XP_054203315.1  poly(rC)-binding protein 4 isoform X2

      UniProtKB/Swiss-Prot
      P57723, Q96AH7

    9. XM_054347344.1 → XP_054203319.1  poly(rC)-binding protein 4 isoform X2

      UniProtKB/Swiss-Prot
      P57723, Q96AH7

    10. XM_054347338.1 → XP_054203313.1  poly(rC)-binding protein 4 isoform X2

      UniProtKB/Swiss-Prot
      P57723, Q96AH7

    11. XM_054347343.1 → XP_054203318.1  poly(rC)-binding protein 4 isoform X5

    12. XM_054347341.1 → XP_054203316.1  poly(rC)-binding protein 4 isoform X3

    13. XM_054347342.1 → XP_054203317.1  poly(rC)-binding protein 4 isoform X4

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_033009.1: Suppressed sequence

      Description
      NM_033009.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein, and the transcript retains intronic sequences.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P57723.1 GenPept UniProtKB/Swiss-Prot:P57723

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