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

Gene ID: 57060, updated on 11-Apr-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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Location:
3p21.2
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (51957454..51967466, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (51990373..52000385, complement)
105.20220307 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. 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
  2. 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
  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. Regulation of the G2/M transition by p53. Taylor WR, et al. Oncogene, 2001 Apr 5. PMID 11313928
  5. 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

See all (33) 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)

Genotypes

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
  
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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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_2023_10

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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