Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Insulin-like growth factor 2 mRNA-binding protein 3

Gene

IGF2BP3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

RNA-binding factor that may recruits target transcripts to cytoplasmic protein-RNA complexes (mRNPs). This transcript 'caging' into mRNPs allows mRNA transport and transient storage. It also modulates the rate and location at which target transcripts encounter the translational apparatus and shields them from endonuclease attacks or microRNA-mediated degradation. Binds to the 3'-UTR of CD44 mRNA and stabilizes it, hence promotes cell adhesion and invadopodia formation in cancer cells. Binds to beta-actin/ACTB and MYC transcripts. Binds to the 5'-UTR of the insulin-like growth factor 2 (IGF2) mRNAs.2 Publications

GO - Molecular functioni

  • mRNA 3'-UTR binding Source: UniProtKB
  • mRNA 5'-UTR binding Source: BHF-UCL
  • nucleotide binding Source: InterPro
  • poly(A) RNA binding Source: UniProtKB
  • RNA binding Source: ProtInc
  • translation regulator activity Source: BHF-UCL

GO - Biological processi

  • anatomical structure morphogenesis Source: ProtInc
  • gene expression Source: Reactome
  • mRNA transport Source: UniProtKB-KW
  • negative regulation of translation Source: BHF-UCL
  • regulation of cytokine biosynthetic process Source: BHF-UCL
  • translation Source: ProtInc
Complete GO annotation...

Keywords - Biological processi

mRNA transport, Translation regulation, Transport

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiR-HSA-428359. Insulin-like Growth Factor-2 mRNA Binding Proteins (IGF2BPs/IMPs/VICKZs) bind RNA.

Names & Taxonomyi

Protein namesi
Recommended name:
Insulin-like growth factor 2 mRNA-binding protein 3
Short name:
IGF2 mRNA-binding protein 3
Short name:
IMP-3
Alternative name(s):
IGF-II mRNA-binding protein 3
KH domain-containing protein overexpressed in cancer
Short name:
hKOC
VICKZ family member 3
Gene namesi
Name:IGF2BP3
Synonyms:IMP3, KOC1, VICKZ3
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 7

Organism-specific databases

HGNCiHGNC:28868. IGF2BP3.

Subcellular locationi

  • Nucleus
  • Cytoplasm

  • Note: Found in lamellipodia of the leading edge, in the perinuclear region, and beneath the plasma membrane. The subcytoplasmic localization is cell specific and regulated by cell contact and growth. Localized at the connecting piece and the tail of the spermatozoa. Colocalized with CD44 mRNA in RNP granules. In response to cellular stress, such as oxidative stress, recruited to stress granules.

GO - Cellular componenti

  • cytoplasm Source: BHF-UCL
  • cytosol Source: Reactome
  • nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi213 – 2131K → E: Loss of homo- and heterooligomerization with IGF2BP1 and IGF2BP2, modestly impaired binding to ACTB and MYC transcripts and almost no effect on ELAVL1-, DHX9- and HNRNPU-binding, nor on subcellular location; when associated with E-294; 422-E-E-423 and 505-E-E-506.
Mutagenesisi294 – 2941K → E: Loss of homo- and heterooligomerization with IGF2BP1 and IGF2BP2, Modestly impaired binding to ACTB and MYC transcripts and almost no effect on ELAVL1-, DHX9- and HNRNPU-binding, nor on subcellular location; when associated with E-213; 422-E-E-423 and 505-E-E-506.
Mutagenesisi423 – 4242KQ → EE: Loss of homo- and heterooligomerization with IGF2BP1 and IGF2BP2, Modestly impaired binding to ACTB and MYC transcripts and almost no effect on ELAVL1-, DHX9- and HNRNPU-binding, nor on subcellular location; when associated with E-213; E-294 and 505-E-E-506. 1 Publication
Mutagenesisi505 – 5062KG → EE: Loss of homo- and heterooligomerization with IGF2BP1 and IGF2BP2, Modestly impaired binding to ACTB and MYC transcripts and almost no effect on ELAVL1-, DHX9- and HNRNPU-binding, nor on subcellular location; when associated with E-213; E-294 and 422-E-E-423. 1 Publication

Organism-specific databases

PharmGKBiPA128394576.

Polymorphism and mutation databases

BioMutaiIGF2BP3.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 579579Insulin-like growth factor 2 mRNA-binding protein 3PRO_0000282538Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei10 – 101PhosphoserineBy similarity
Modified residuei73 – 731PhosphoserineBy similarity
Modified residuei184 – 1841PhosphoserineCombined sources
Cross-linki475 – 475Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei528 – 5281PhosphothreonineCombined sources

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiO00425.
MaxQBiO00425.
PaxDbiO00425.
PeptideAtlasiO00425.
PRIDEiO00425.

PTM databases

iPTMnetiO00425.
PhosphoSiteiO00425.
SwissPalmiO00425.

Expressioni

Tissue specificityi

Expressed in fetal liver, fetal lung, fetal kidney, fetal thymus, fetal placenta, fetal follicles of ovary and gonocytes of testis, growing oocytes, spermatogonia and semen (at protein level). Expressed in cervix adenocarcinoma, in testicular, pancreatic and renal-cell carcinomas (at protein level). Expressed ubiquitously during fetal development at 8 and 14 weeks of gestation. Expressed in ovary, testis, brain, placenta, pancreatic cancer tissues and pancreatic cancer cell lines.8 Publications

Gene expression databases

BgeeiENSG00000136231.
CleanExiHS_IGF2BP3.
HS_IMP3.
ExpressionAtlasiO00425. baseline and differential.
GenevisibleiO00425. HS.

Organism-specific databases

HPAiHPA002037.

Interactioni

Subunit structurei

Can form homooligomers and heterooligomers with IGF2BP1 and IGF2BP3 in an RNA-dependent manner. Interacts with IGF2BP1. Interacts with ELAVL1, DHX9 and HNRNPU.2 Publications

Protein-protein interaction databases

BioGridi115887. 87 interactions.
IntActiO00425. 26 interactions.
MINTiMINT-2997694.
STRINGi9606.ENSP00000258729.

Structurei

Secondary structure

1
579
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi83 – 886Combined sources
Beta strandi90 – 923Combined sources
Helixi94 – 10411Combined sources
Beta strandi107 – 1137Combined sources
Beta strandi116 – 12813Combined sources
Helixi129 – 13911Combined sources
Beta strandi150 – 1534Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2E44NMR-A73-161[»]
ProteinModelPortaliO00425.
SMRiO00425. Positions 1-161, 198-349, 406-562.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO00425.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 7574RRM 1PROSITE-ProRule annotationAdd
BLAST
Domaini81 – 15676RRM 2PROSITE-ProRule annotationAdd
BLAST
Domaini195 – 26066KH 1PROSITE-ProRule annotationAdd
BLAST
Domaini276 – 34368KH 2PROSITE-ProRule annotationAdd
BLAST
Domaini405 – 47066KH 3PROSITE-ProRule annotationAdd
BLAST
Domaini487 – 55367KH 4PROSITE-ProRule annotationAdd
BLAST

Domaini

All KH domains contribute binding to target mRNA. They are also required for RNA-dependent homo- and heterooligomerization. The integrity of KH domains seems not to be required for localization to stress granules.2 Publications

Sequence similaritiesi

Belongs to the RRM IMP/VICKZ family.Curated
Contains 4 KH domains.PROSITE-ProRule annotation
Contains 2 RRM (RNA recognition motif) domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG2193. Eukaryota.
ENOG410ZKB4. LUCA.
GeneTreeiENSGT00530000063171.
HOGENOMiHOG000000675.
HOVERGENiHBG052725.
InParanoidiO00425.
KOiK13197.
OMAiNGSMMEN.
OrthoDBiEOG091G17T1.
PhylomeDBiO00425.
TreeFamiTF320229.

Family and domain databases

Gene3Di3.30.1370.10. 4 hits.
3.30.70.330. 2 hits.
InterProiIPR004087. KH_dom.
IPR004088. KH_dom_type_1.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00013. KH_1. 4 hits.
PF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00322. KH. 4 hits.
SM00360. RRM. 2 hits.
[Graphical view]
SUPFAMiSSF54791. SSF54791. 4 hits.
SSF54928. SSF54928. 1 hit.
PROSITEiPS50084. KH_TYPE_1. 4 hits.
PS50102. RRM. 2 hits.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: O00425-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MNKLYIGNLS ENAAPSDLES IFKDAKIPVS GPFLVKTGYA FVDCPDESWA
60 70 80 90 100
LKAIEALSGK IELHGKPIEV EHSVPKRQRI RKLQIRNIPP HLQWEVLDSL
110 120 130 140 150
LVQYGVVESC EQVNTDSETA VVNVTYSSKD QARQALDKLN GFQLENFTLK
160 170 180 190 200
VAYIPDEMAA QQNPLQQPRG RRGLGQRGSS RQGSPGSVSK QKPCDLPLRL
210 220 230 240 250
LVPTQFVGAI IGKEGATIRN ITKQTQSKID VHRKENAGAA EKSITILSTP
260 270 280 290 300
EGTSAACKSI LEIMHKEAQD IKFTEEIPLK ILAHNNFVGR LIGKEGRNLK
310 320 330 340 350
KIEQDTDTKI TISPLQELTL YNPERTITVK GNVETCAKAE EEIMKKIRES
360 370 380 390 400
YENDIASMNL QAHLIPGLNL NALGLFPPTS GMPPPTSGPP SAMTPPYPQF
410 420 430 440 450
EQSETETVHL FIPALSVGAI IGKQGQHIKQ LSRFAGASIK IAPAEAPDAK
460 470 480 490 500
VRMVIITGPP EAQFKAQGRI YGKIKEENFV SPKEEVKLEA HIRVPSFAAG
510 520 530 540 550
RVIGKGGKTV NELQNLSSAE VVVPRDQTPD ENDQVVVKIT GHFYACQVAQ
560 570
RKIQEILTQV KQHQQQKALQ SGPPQSRRK
Length:579
Mass (Da):63,705
Last modified:July 28, 2009 - v2
Checksum:i78884F56A9D98CDE
GO
Isoform 2 (identifier: O00425-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-381: Missing.

Show »
Length:198
Mass (Da):21,630
Checksum:i69BEB7C296373BE7
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti410 – 4101L → Q in AAD09223 (PubMed:9178771).Curated
Sequence conflicti410 – 4101L → Q in AAC35208 (PubMed:9178771).Curated
Sequence conflicti494 – 4941V → A in CAH56186 (PubMed:17974005).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 381381Missing in isoform 2. 1 PublicationVSP_024172Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U76705 mRNA. Translation: AAD09223.1.
U97188 mRNA. Translation: AAC35208.1.
BX640800 mRNA. Translation: CAE45883.1.
BX648488 mRNA. Translation: CAH56186.1.
AC005082 Genomic DNA. No translation available.
AC021876 Genomic DNA. No translation available.
AC079780 Genomic DNA. No translation available.
BC065269 mRNA. Translation: AAH65269.1.
CCDSiCCDS5382.1. [O00425-1]
RefSeqiNP_006538.2. NM_006547.2. [O00425-1]
UniGeneiHs.700696.

Genome annotation databases

EnsembliENST00000258729; ENSP00000258729; ENSG00000136231. [O00425-1]
ENST00000619562; ENSP00000480267; ENSG00000136231. [O00425-2]
GeneIDi10643.
KEGGihsa:10643.
UCSCiuc003swf.4. human. [O00425-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U76705 mRNA. Translation: AAD09223.1.
U97188 mRNA. Translation: AAC35208.1.
BX640800 mRNA. Translation: CAE45883.1.
BX648488 mRNA. Translation: CAH56186.1.
AC005082 Genomic DNA. No translation available.
AC021876 Genomic DNA. No translation available.
AC079780 Genomic DNA. No translation available.
BC065269 mRNA. Translation: AAH65269.1.
CCDSiCCDS5382.1. [O00425-1]
RefSeqiNP_006538.2. NM_006547.2. [O00425-1]
UniGeneiHs.700696.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2E44NMR-A73-161[»]
ProteinModelPortaliO00425.
SMRiO00425. Positions 1-161, 198-349, 406-562.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115887. 87 interactions.
IntActiO00425. 26 interactions.
MINTiMINT-2997694.
STRINGi9606.ENSP00000258729.

PTM databases

iPTMnetiO00425.
PhosphoSiteiO00425.
SwissPalmiO00425.

Polymorphism and mutation databases

BioMutaiIGF2BP3.

Proteomic databases

EPDiO00425.
MaxQBiO00425.
PaxDbiO00425.
PeptideAtlasiO00425.
PRIDEiO00425.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000258729; ENSP00000258729; ENSG00000136231. [O00425-1]
ENST00000619562; ENSP00000480267; ENSG00000136231. [O00425-2]
GeneIDi10643.
KEGGihsa:10643.
UCSCiuc003swf.4. human. [O00425-1]

Organism-specific databases

CTDi10643.
GeneCardsiIGF2BP3.
HGNCiHGNC:28868. IGF2BP3.
HPAiHPA002037.
MIMi608259. gene.
neXtProtiNX_O00425.
PharmGKBiPA128394576.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2193. Eukaryota.
ENOG410ZKB4. LUCA.
GeneTreeiENSGT00530000063171.
HOGENOMiHOG000000675.
HOVERGENiHBG052725.
InParanoidiO00425.
KOiK13197.
OMAiNGSMMEN.
OrthoDBiEOG091G17T1.
PhylomeDBiO00425.
TreeFamiTF320229.

Enzyme and pathway databases

ReactomeiR-HSA-428359. Insulin-like Growth Factor-2 mRNA Binding Proteins (IGF2BPs/IMPs/VICKZs) bind RNA.

Miscellaneous databases

ChiTaRSiIGF2BP3. human.
EvolutionaryTraceiO00425.
GeneWikiiIGF2BP3.
GenomeRNAii10643.
PROiO00425.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000136231.
CleanExiHS_IGF2BP3.
HS_IMP3.
ExpressionAtlasiO00425. baseline and differential.
GenevisibleiO00425. HS.

Family and domain databases

Gene3Di3.30.1370.10. 4 hits.
3.30.70.330. 2 hits.
InterProiIPR004087. KH_dom.
IPR004088. KH_dom_type_1.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00013. KH_1. 4 hits.
PF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00322. KH. 4 hits.
SM00360. RRM. 2 hits.
[Graphical view]
SUPFAMiSSF54791. SSF54791. 4 hits.
SSF54928. SSF54928. 1 hit.
PROSITEiPS50084. KH_TYPE_1. 4 hits.
PS50102. RRM. 2 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiIF2B3_HUMAN
AccessioniPrimary (citable) accession number: O00425
Secondary accession number(s): A0A4Z5
, Q63HM0, Q6MZZ2, Q86VB1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 3, 2007
Last sequence update: July 28, 2009
Last modified: September 7, 2016
This is version 144 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Miscellaneous

Autoantibodies against IGF2BP3 are detected in sera from some patients with a variety of carcinomas.

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 7
    Human chromosome 7: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.