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

Gene ID: 57060, updated on 9-Feb-2020

Summary

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
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

Genomic context

See PCBP4 in Genome Data Viewer
Location:
3p21.2
Exon count:
15
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (51957454..51967466, complement)
105 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 poly(ADP-ribose) polymerase family member 3 Neighboring gene G protein-coupled receptor 62 Neighboring gene abhydrolase domain containing 14B Neighboring gene ABHD14A-ACY1 readthrough Neighboring gene abhydrolase domain containing 14A

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?

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
 
RNA binding HDA PubMed 
RNA binding NAS
Non-traceable Author Statement
more info
PubMed 
mRNA 3'-UTR binding IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 

General protein information

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

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.

Genomic

  1. NG_029694.1 RefSeqGene

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

mRNA and Protein(s)

  1. NM_001174100.2NP_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
    UniProtKB/TrEMBL
    A0A024R320
    Related
    ENSP00000417196.1, ENST00000461554.5
    Conserved Domains (2) summary
    cd02396
    Location:103167
    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:243307
    KH_1; KH domain
  2. NM_001363885.1NP_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
    Conserved Domains (2) summary
    cd02396
    Location:103167
    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:243307
    KH_1; KH domain
  3. NM_020418.4NP_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/Swiss-Prot
    P57723
    Related
    ENSP00000395030.2, ENST00000428823.6
    Conserved Domains (3) summary
    cd02396
    Location:1980
    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:200264
    KH_1; KH domain
    cl00098
    Location:103137
    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_033008.3NP_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
    UniProtKB/TrEMBL
    A0A024R320
    Related
    ENSP00000348111.2, ENST00000355852.6
    Conserved Domains (2) summary
    cd02396
    Location:103167
    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:243307
    KH_1; KH domain
  5. NM_033010.2NP_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
    UniProtKB/TrEMBL
    A0A024R320
    Related
    ENSP00000322341.7, ENST00000322099.11
    Conserved Domains (2) summary
    cd02396
    Location:103167
    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:243307
    KH_1; KH domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

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

mRNA and Protein(s)

  1. XM_017006920.2XP_016862409.1  poly(rC)-binding protein 4 isoform X7

  2. XM_006713270.2XP_006713333.1  poly(rC)-binding protein 4 isoform X5

    See identical proteins and their annotated locations for XP_006713333.1

    UniProtKB/Swiss-Prot
    P57723
    Conserved Domains (3) summary
    cd02396
    Location:1980
    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:200264
    KH_1; KH domain
    cl00098
    Location:103137
    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 ...
  3. XM_024453682.1XP_024309450.1  poly(rC)-binding protein 4 isoform X2

    Conserved Domains (2) summary
    cd02396
    Location:1980
    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:298362
    KH_1; KH domain
  4. XM_017006919.2XP_016862408.1  poly(rC)-binding protein 4 isoform X6

    UniProtKB/TrEMBL
    C9J0A4
    Related
    ENSP00000418925.1, ENST00000471622.5
    Conserved Domains (2) summary
    cd02396
    Location:103167
    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:243307
    KH_1; KH domain
  5. XM_024453681.1XP_024309449.1  poly(rC)-binding protein 4 isoform X2

    Conserved Domains (2) summary
    cd02396
    Location:1980
    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:298362
    KH_1; KH domain
  6. XM_006713269.1XP_006713332.1  poly(rC)-binding protein 4 isoform X3

    See identical proteins and their annotated locations for XP_006713332.1

    UniProtKB/Swiss-Prot
    P57723
    UniProtKB/TrEMBL
    A0A024R320
    Conserved Domains (2) summary
    cd02396
    Location:103167
    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:243307
    KH_1; KH domain
  7. XM_024453680.1XP_024309448.1  poly(rC)-binding protein 4 isoform X2

    Conserved Domains (2) summary
    cd02396
    Location:1980
    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:298362
    KH_1; KH domain
  8. XM_005265331.3XP_005265388.1  poly(rC)-binding protein 4 isoform X3

    See identical proteins and their annotated locations for XP_005265388.1

    UniProtKB/Swiss-Prot
    P57723
    UniProtKB/TrEMBL
    A0A024R320
    Conserved Domains (2) summary
    cd02396
    Location:103167
    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:243307
    KH_1; KH domain
  9. XM_024453683.1XP_024309451.1  poly(rC)-binding protein 4 isoform X2

    Conserved Domains (2) summary
    cd02396
    Location:1980
    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:298362
    KH_1; KH domain
  10. XM_024453678.1XP_024309446.1  poly(rC)-binding protein 4 isoform X1

    Conserved Domains (2) summary
    cd02396
    Location:42103
    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:321385
    KH_1; KH domain
  11. XM_017006918.2XP_016862407.1  poly(rC)-binding protein 4 isoform X6

    UniProtKB/TrEMBL
    C9J0A4
    Conserved Domains (2) summary
    cd02396
    Location:103167
    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:243307
    KH_1; KH domain
  12. XM_024453679.1XP_024309447.1  poly(rC)-binding protein 4 isoform X2

    Conserved Domains (2) summary
    cd02396
    Location:1980
    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:298362
    KH_1; KH domain
  13. XM_024453684.1XP_024309452.1  poly(rC)-binding protein 4 isoform X4

    Conserved Domains (2) summary
    cd02396
    Location:1980
    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:298362
    KH_1; KH domain

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.
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