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IGFBP3 insulin like growth factor binding protein 3 [ Homo sapiens (human) ]

Gene ID: 3486, updated on 2-Nov-2024

Summary

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Official Symbol
IGFBP3provided by HGNC
Official Full Name
insulin like growth factor binding protein 3provided by HGNC
Primary source
HGNC:HGNC:5472
See related
Ensembl:ENSG00000146674 MIM:146732; AllianceGenome:HGNC:5472
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
IBP3; BP-53; IBP-3; IGFBP-3
Summary
This gene is a member of the insulin-like growth factor binding protein (IGFBP) family and encodes a protein with an IGFBP domain and a thyroglobulin type-I domain. The protein forms a ternary complex with insulin-like growth factor acid-labile subunit (IGFALS) and either insulin-like growth factor (IGF) I or II. In this form, it circulates in the plasma, prolonging the half-life of IGFs and altering their interaction with cell surface receptors. Alternate transcriptional splice variants, encoding different isoforms, have been characterized. [provided by RefSeq, Jul 2008]
Expression
Biased expression in placenta (RPKM 686.3), endometrium (RPKM 259.6) and 7 other tissues See more
Orthologs
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Genomic context

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See IGFBP3 in Genome Data Viewer
Location:
7p12.3
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (45912245..45921272, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (46073961..46082986, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (45951844..45960871, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene coiled-coil domain containing 201 Neighboring gene NANOG hESC enhancer GRCh37_chr7:45918149-45918667 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:45925716-45925933 Neighboring gene insulin like growth factor binding protein 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:45960674-45961254 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:45961255-45961835 Neighboring gene uncharacterized LOC102723446 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:45992471-45992971 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr7:46017226-46018425 Neighboring gene RNA, U7 small nuclear 76 pseudogene Neighboring gene uncharacterized LOC105375264 Neighboring gene ferritin light chain pseudogene 15

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 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. Insulin-like-growth-factor-binding-protein-3 (IGFBP-3) contrasts melanoma progression in vitro and in vivo. Naspi A, et al. PLoS One, 2014. PMID 24905466, Free PMC Article
  2. Nonsecreted insulin-like growth factor binding protein-3 (IGFBP-3) can induce apoptosis in human prostate cancer cells by IGF-independent mechanisms without being concentrated in the nucleus. Bhattacharyya N, et al. J Biol Chem, 2006 Aug 25. PMID 16793770
  3. Growth inhibitory concentrations of androgens up-regulate insulin-like growth factor binding protein-3 expression via an androgen response element in LNCaP human prostate cancer cells. Peng L, et al. Endocrinology, 2006 Oct. PMID 16825320
  4. Pioglitazone restores IGFBP-3 levels through DNA PK in retinal endothelial cells cultured in hyperglycemic conditions. Thakran S, et al. Invest Ophthalmol Vis Sci, 2014 Dec 18. PMID 25525174, Free PMC Article
  5. Methylation status of IGFBP-3 as a useful clinical tool for deciding on a concomitant radiotherapy. Pernía O, et al. Epigenetics, 2014 Nov. PMID 25482372, Free PMC Article

See all (756) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Discovering genes and microRNAs involved in human lung development unveils IGFBP3/miR-34a dynamics and their relevance for alveolar differentiation.
    Title: Discovering genes and microRNAs involved in human lung development unveils IGFBP3/miR-34a dynamics and their relevance for alveolar differentiation.
  2. IGF2BP2 and IGFBP3 Genotypes, Haplotypes, and Genetic Models Studies in Polycystic Ovary Syndrome.
    Title: IGF2BP2 and IGFBP3 Genotypes, Haplotypes, and Genetic Models Studies in Polycystic Ovary Syndrome.
  3. Novel therapeutic targets, including IGFBP3, of umbilical cord mesenchymal stem-cell-conditioned medium in intrauterine adhesion.
    Title: Novel therapeutic targets, including IGFBP3, of umbilical cord mesenchymal stem-cell-conditioned medium in intrauterine adhesion.
  4. Insulin-like growth factor binding protein-3 mediates hyperosmolar stress-induced mitophagy through the mechanistic target of rapamycin.
    Title: Insulin-like growth factor binding protein-3 mediates hyperosmolar stress-induced mitophagy through the mechanistic target of rapamycin.
  5. Expression of insulin-like growth factor binding protein-3 in HELLP syndrome.
    Title: Expression of insulin-like growth factor binding protein-3 in HELLP syndrome.
  6. Insulin-like growth factor binding protein 3 promoter variant (rs2854744) is associated with nonalcoholic fatty liver disease.
    Title: Insulin-like growth factor binding protein 3 promoter variant (rs2854744) is associated with nonalcoholic fatty liver disease.
  7. MicroRNA-210-3p Regulates Endometriotic Lesion Development by Targeting IGFBP3 in Baboons and Women with Endometriosis.
    Title: MicroRNA-210-3p Regulates Endometriotic Lesion Development by Targeting IGFBP3 in Baboons and Women with Endometriosis.
  8. The relationship between serum leptin, insulin-like growth factor-1, and insulin-like growth factor binding protein-3 levels and clinical parameters in primary fibromyalgia patients.
    Title: The relationship between serum leptin, insulin-like growth factor-1, and insulin-like growth factor binding protein-3 levels and clinical parameters in primary fibromyalgia patients.
  9. Obese Asthma Phenotype Is Associated with hsa-miR-26a-1-3p and hsa-miR-376a-3p Modulating the IGF Axis.
    Title: Obese Asthma Phenotype Is Associated with hsa-miR-26a-1-3p and hsa-miR-376a-3p Modulating the IGF Axis.
  10. GATA4 inhibits odontoblastic differentiation of dental pulp stem cells through targeting IGFBP3.
    Title: GATA4 inhibits odontoblastic differentiation of dental pulp stem cells through targeting IGFBP3.
Submit: New GeneRIF Correction See all GeneRIFs (618)

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
A genome-wide association study identifies novel loci associated with circulating IGF-I and IGFBP-3.
EBI GWAS Catalog
Common genetic variation and antidepressant efficacy in major depressive disorder: a meta-analysis of three genome-wide pharmacogenetic studies.
EBI GWAS Catalog
Common variants in 22 loci are associated with QRS duration and cardiac ventricular conduction.
EBI GWAS Catalog
Genome-wide association analyses identify variants in developmental genes associated with hypospadias.
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)

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 fibronectin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables insulin-like growth factor I binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables insulin-like growth factor I binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables insulin-like growth factor II binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables insulin-like growth factor binding NAS
Non-traceable Author Statement
more info
 PubMed 
enables metal ion binding NAS
Non-traceable Author Statement
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein tyrosine phosphatase activator activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in MAPK cascade IEA
Inferred from Electronic Annotation
more info
  
involved_in apoptotic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within negative regulation of cell population proliferation IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within negative regulation of protein phosphorylation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of signal transduction NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in negative regulation of smooth muscle cell migration IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of smooth muscle cell proliferation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in osteoblast differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of MAPK cascade IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of apoptotic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of insulin-like growth factor receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of myoblast differentiation IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within protein phosphorylation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of cell growth IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of glucose metabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of insulin-like growth factor receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in type B pancreatic cell proliferation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in endoplasmic reticulum lumen TAS
Traceable Author Statement
more info
  
located_in extracellular region NAS
Non-traceable Author Statement
more info
 PubMed 
located_in extracellular region TAS
Traceable Author Statement
more info
  
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in extracellular space IDA
Inferred from Direct Assay
more info
 PubMed 
part_of insulin-like growth factor binding protein complex IC
Inferred by Curator
more info
 PubMed 
part_of insulin-like growth factor ternary complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
insulin-like growth factor-binding protein 3
Names
IGF-binding protein 3
acid stable subunit of the 140 K IGF complex
binding protein 29
binding protein 53
growth hormone-dependent binding protein

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_011508.1 RefSeqGene

    Range
    5001..14028
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_68

mRNA and Protein(s)

  1. NM_000598.5 → NP_000589.2  insulin-like growth factor-binding protein 3 isoform b precursor

    See identical proteins and their annotated locations for NP_000589.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1, resulting in a shorter protein (isoform b).
    Source sequence(s)
    AI142967, AK056274, AU102436, BC064987
    Consensus CDS
    CCDS5505.1
    UniProtKB/Swiss-Prot
    A4D2F5, D3DVM0, P17936, Q2V509, Q6P1M6, Q9UCL4
    UniProtKB/TrEMBL
    B4DN53
    Related
    ENSP00000477772.2, ENST00000613132.5
    Conserved Domains (2) summary
    smart00121
    Location:38 → 115
    IB; Insulin growth factor-binding protein homologues
    pfam00086
    Location:213 → 285
    Thyroglobulin_1; Thyroglobulin type-1 repeat

  2. NM_001013398.2 → NP_001013416.1  insulin-like growth factor-binding protein 3 isoform a precursor

    See identical proteins and their annotated locations for NP_001013416.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AC091524, AI142967, AL540642, BC064987, X64875
    Consensus CDS
    CCDS34632.1
    UniProtKB/TrEMBL
    B4DN53
    Related
    ENSP00000370473.4, ENST00000381083.9
    Conserved Domains (2) summary
    smart00121
    Location:38 → 115
    IB; Insulin growth factor-binding protein homologues
    pfam00086
    Location:219 → 291
    Thyroglobulin_1; Thyroglobulin type-1 repeat

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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    45912245..45921272 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047420325.1 → XP_047276281.1  insulin-like growth factor-binding protein 3 isoform X1

    UniProtKB/Swiss-Prot
    A4D2F5, D3DVM0, P17936, Q2V509, Q6P1M6, Q9UCL4

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    46073961..46082986 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054358119.1 → XP_054214094.1  insulin-like growth factor-binding protein 3 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P17936.2 GenPept UniProtKB/Swiss-Prot:P17936

Gene LinkOut

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