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IGF2BP1 insulin like growth factor 2 mRNA binding protein 1 [ Homo sapiens (human) ]

Gene ID: 10642, updated on 21-May-2019

Summary

Official Symbol
IGF2BP1provided by HGNC
Official Full Name
insulin like growth factor 2 mRNA binding protein 1provided by HGNC
Primary source
HGNC:HGNC:28866
See related
Ensembl:ENSG00000159217 MIM:608288
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
IMP1; ZBP1; CRDBP; IMP-1; CRD-BP; VICKZ1
Summary
This gene encodes a member of the insulin-like growth factor 2 mRNA-binding protein family. The protein encoded by this gene contains four K homology domains and two RNA recognition motifs. It functions by binding to the mRNAs of certain genes, including insulin-like growth factor 2, beta-actin and beta-transducin repeat-containing protein, and regulating their translation. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2009]
Expression
Biased expression in testis (RPKM 3.6), placenta (RPKM 2.9) and 1 other tissue See more
Orthologs

Genomic context

See IGF2BP1 in Genome Data Viewer
Location:
17q21.32
Exon count:
16
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 17 NC_000017.11 (48997412..49056145)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (47074774..47133507)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene RNA, U1 small nuclear 42, pseudogene Neighboring gene gastric inhibitory polypeptide Neighboring gene COX assembly mitochondrial protein homolog pseudogene Neighboring gene RNA, U6 small nuclear 826, pseudogene Neighboring gene B4GALNT2 pseudogene 1 Neighboring gene beta-1,4-N-acetyl-galactosaminyltransferase 2 Neighboring gene ribosomal protein S10 pseudogene 25

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 FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association study of primary tooth eruption identifies pleiotropic loci associated with height and craniofacial distances.
NHGRI GWA Catalog
Genome-wide association study reveals multiple loci associated with primary tooth development during infancy.
NHGRI GWA Catalog
Identification of 23 new prostate cancer susceptibility loci using the iCOGS custom genotyping array.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify insulin-like growth factor 2 Mrna binding protein 1 (IGF2BP1), 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 insulin-like growth factor 2 Mrna binding protein 1 (IGF2BP1), 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 insulin-like growth factor 2 Mrna binding protein 1 (IGF2BP1), 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 insulin-like growth factor 2 Mrna binding protein 1 (IGF2BP1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
gag Expression of IMP1 protein decreases HIV-1 infectivity, inhibits viral RNA packaging, and impedes the assembly and processing of Gag on cellular membrane PubMed
gag Gag-IMP1 interaction requires the second zinc finger of the NC domain (residues 390-449) of Gag and the KH3 (residues 409-458) and KH4 (residues 490-540) domains of IMP1 PubMed
gag IMP1 co-localizes with HIV-1 Gag in cells and is packaged into virus particles via its interaction with HIV-1 Gag PubMed
Rev rev IMP1 interacts with HIV-1 Rev and has the ability of relocating Rev from the nucleus to the cytoplasm PubMed
nucleocapsid gag Gag-IMP1 interaction requires the second zinc finger of the NC domain (residues 390-449) of Gag and the KH3 (residues 409-458) and KH4 (residues 490-540) domains of IMP1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Brain-Derived Neurotrophic Factor (BDNF) signaling pathway, organism-specific biosystem (from WikiPathways)
    Brain-Derived Neurotrophic Factor (BDNF) signaling pathway, organism-specific biosystemBrain-derived neurotrophic factor (BDNF) is a neurotrophin essential for growth, differentiation, plasticity, and survival of neurons. BDNF is also required for processes such as energy metabolism, b...
  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Insulin-like Growth Factor-2 mRNA Binding Proteins (IGF2BPs/IMPs/VICKZs) bind RNA, organism-specific biosystem (from REACTOME)
    Insulin-like Growth Factor-2 mRNA Binding Proteins (IGF2BPs/IMPs/VICKZs) bind RNA, organism-specific biosystemInsulin-like Growth Factor-2 mRNA Binding Proteins (IGF2BPs) bind specific sets of RNA and regulate their translation, stability, and subcellular localization. IGF2BP1, IGF2BP2, and IGF2BP3 bind abou...
  • MAPK family signaling cascades, organism-specific biosystem (from REACTOME)
    MAPK family signaling cascades, organism-specific biosystemThe mitogen activated protein kinases (MAPKs) are a family of conserved protein serine threonine kinases that respond to varied extracellular stimuli to activate intracellular processes including gen...
  • MAPK6/MAPK4 signaling, organism-specific biosystem (from REACTOME)
    MAPK6/MAPK4 signaling, organism-specific biosystemMAPK6 and MAPK4 (also known as ERK3 and ERK4) are vertebrate-specific atypical MAP kinases. Atypical MAPK are less well characterized than their conventional counterparts, and are generally classifi...
  • MicroRNAs in cancer, organism-specific biosystem (from KEGG)
    MicroRNAs in cancer, organism-specific biosystemMicroRNA (miRNA) is a cluster of small non-encoding RNA molecules of 21 - 23 nucleotides in length, which controls gene expression post-transcriptionally either via the degradation of target mRNAs or...
  • MicroRNAs in cancer, conserved biosystem (from KEGG)
    MicroRNAs in cancer, conserved biosystemMicroRNA (miRNA) is a cluster of small non-encoding RNA molecules of 21 - 23 nucleotides in length, which controls gene expression post-transcriptionally either via the degradation of target mRNAs or...
  • Regulation of Wnt-mediated beta catenin signaling and target gene transcription, organism-specific biosystem (from Pathway Interaction Database)
    Regulation of Wnt-mediated beta catenin signaling and target gene transcription, organism-specific biosystem
    Regulation of Wnt-mediated beta catenin signaling and target gene transcription
  • Signal Transduction, organism-specific biosystem (from REACTOME)
    Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
  • eIF5A regulation in response to inhibition of the nuclear export system, organism-specific biosystem (from WikiPathways)
    eIF5A regulation in response to inhibition of the nuclear export system, organism-specific biosystemModel of eIF5A regulation in response to inhibition of the nuclear export system. Under normal conditions, IGF2BP1 is exported by XPO1 and binds to eIF5A in cytoplasm. The binding with IGF2BP1 preven...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
mRNA 3'-UTR binding IDA
Inferred from Direct Assay
more info
PubMed 
mRNA 5'-UTR binding IDA
Inferred from Direct Assay
more info
PubMed 
mRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
translation regulator activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
CRD-mediated mRNA stabilization IDA
Inferred from Direct Assay
more info
PubMed 
mRNA transport IEA
Inferred from Electronic Annotation
more info
 
negative regulation of translation IDA
Inferred from Direct Assay
more info
PubMed 
neuronal stem cell population maintenance IEA
Inferred from Electronic Annotation
more info
 
pallium cell proliferation in forebrain IEA
Inferred from Electronic Annotation
more info
 
regulation of cytokine biosynthetic process IC
Inferred by Curator
more info
PubMed 
regulation of mRNA stability TAS
Traceable Author Statement
more info
 
regulation of mRNA stability involved in response to stress IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
CRD-mediated mRNA stability complex IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasmic stress granule IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 
dendritic spine IEA
Inferred from Electronic Annotation
more info
 
filopodium IEA
Inferred from Electronic Annotation
more info
 
growth cone IEA
Inferred from Electronic Annotation
more info
 
lamellipodium IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 
ribonucleoprotein complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
insulin-like growth factor 2 mRNA-binding protein 1
Names
IGF-II mRNA-binding protein 1
IGF2 mRNA-binding protein 1
VICKZ family member 1
ZBP-1
coding region determinant-binding protein
insulin-like growth factor 2 mRNA binding protein 1 deltaN CRDBP
zipcode-binding protein 1

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_030585.1 RefSeqGene

    Range
    5001..63734
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001160423.1NP_001153895.1  insulin-like growth factor 2 mRNA-binding protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001153895.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks two alternate in-frame exons compared to variant 1. The resulting isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AC105030, DA758608, DQ227344
    Consensus CDS
    CCDS54138.1
    UniProtKB/Swiss-Prot
    Q9NZI8
    Related
    ENSP00000389135.2, ENST00000431824.2
    Conserved Domains (4) summary
    cd00105
    Location:140205
    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 ...
    cd12625
    Location:177
    RRM1_IGF2BP1; RNA recognition motif 1 in vertebrate insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1)
    pfam00013
    Location:269332
    KH_1; KH domain
    cl17169
    Location:81135
    RRM_SF; RNA recognition motif (RRM) superfamily
  2. NM_006546.4NP_006537.3  insulin-like growth factor 2 mRNA-binding protein 1 isoform 1

    See identical proteins and their annotated locations for NP_006537.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC091133, AC105030, AF198254, AK074915, BP238821
    Consensus CDS
    CCDS11543.1
    UniProtKB/Swiss-Prot
    Q9NZI8
    Related
    ENSP00000290341.3, ENST00000290341.8
    Conserved Domains (4) summary
    cd00105
    Location:279344
    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 ...
    cd12625
    Location:177
    RRM1_IGF2BP1; RNA recognition motif 1 in vertebrate insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1)
    cd12628
    Location:81156
    RRM2_IGF2BP1; RNA recognition motif 2 in vertebrate insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1)
    pfam00013
    Location:198262
    KH_1; KH domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p12 Primary Assembly

    Range
    48997412..49056145
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011524201.2XP_011522503.1  insulin-like growth factor 2 mRNA-binding protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011522503.1

    Conserved Domains (4) summary
    cd00105
    Location:279344
    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 ...
    cd12625
    Location:177
    RRM1_IGF2BP1; RNA recognition motif 1 in vertebrate insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1)
    cd12628
    Location:81156
    RRM2_IGF2BP1; RNA recognition motif 2 in vertebrate insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1)
    pfam00013
    Location:198262
    KH_1; KH domain
  2. XM_017024022.1XP_016879511.1  insulin-like growth factor 2 mRNA-binding protein 1 isoform X2

  3. XM_005256955.3XP_005257012.2  insulin-like growth factor 2 mRNA-binding protein 1 isoform X3

    Conserved Domains (3) summary
    COG0724
    Location:57146
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd00105
    Location:267332
    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 ...
    cd12628
    Location:69144
    RRM2_IGF2BP1; RNA recognition motif 2 in vertebrate insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1)
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