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Protein

Insulin-like growth factor 2 mRNA-binding protein 3

Gene

IGF2BP3

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

Functioni

RNA-binding factor that may recruit 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

Miscellaneous

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

GO - Molecular functioni

  • mRNA 3'-UTR binding Source: UniProtKB
  • mRNA 5'-UTR binding Source: BHF-UCL
  • RNA binding Source: UniProtKB
  • translation regulator activity Source: BHF-UCL

GO - Biological processi

  • anatomical structure morphogenesis Source: ProtInc
  • mRNA transport Source: UniProtKB-KW
  • negative regulation of translation Source: BHF-UCL
  • regulation of cytokine biosynthetic process Source: BHF-UCL
  • regulation of mRNA stability Source: Reactome
  • translation Source: ProtInc

Keywordsi

Molecular functionRNA-binding
Biological processmRNA transport, Translation regulation, Transport

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

EuPathDBiHostDB:ENSG00000136231.13
HGNCiHGNC:28868 IGF2BP3
MIMi608259 gene
neXtProtiNX_O00425

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi213K → 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. 1
Mutagenesisi294K → 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. 1
Mutagenesisi423 – 424KQ → 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 Publication2
Mutagenesisi505 – 506KG → 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 Publication2

Organism-specific databases

DisGeNETi10643
OpenTargetsiENSG00000136231
PharmGKBiPA128394576

Polymorphism and mutation databases

BioMutaiIGF2BP3

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002825381 – 579Insulin-like growth factor 2 mRNA-binding protein 3Add BLAST579

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei184PhosphoserineCombined sources1
Cross-linki450Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki475Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei528PhosphothreonineCombined sources1

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiO00425
MaxQBiO00425
PaxDbiO00425
PeptideAtlasiO00425
PRIDEiO00425
ProteomicsDBi47882
47883 [O00425-2]

PTM databases

iPTMnetiO00425
PhosphoSitePlusiO00425
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 Expressed in 143 organ(s), highest expression level in secondary oocyte
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, 170 interactors
CORUMiO00425
DIPiDIP-44171N
IntActiO00425, 33 interactors
MINTiO00425
STRINGi9606.ENSP00000258729

Structurei

Secondary structure

1579
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliO00425
SMRiO00425
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO00425

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini2 – 75RRM 1PROSITE-ProRule annotationAdd BLAST74
Domaini81 – 156RRM 2PROSITE-ProRule annotationAdd BLAST76
Domaini195 – 260KH 1PROSITE-ProRule annotationAdd BLAST66
Domaini276 – 343KH 2PROSITE-ProRule annotationAdd BLAST68
Domaini405 – 470KH 3PROSITE-ProRule annotationAdd BLAST66
Domaini487 – 553KH 4PROSITE-ProRule annotationAdd BLAST67

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

Keywords - Domaini

Repeat

Phylogenomic databases

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

Family and domain databases

CDDicd12630 RRM2_IGF2BP3, 1 hit
Gene3Di3.30.1370.10, 2 hits
3.30.70.330, 2 hits
InterProiView protein in InterPro
IPR034844 IGF2BP3_RRM2
IPR004087 KH_dom
IPR004088 KH_dom_type_1
IPR036612 KH_dom_type_1_sf
IPR012677 Nucleotide-bd_a/b_plait_sf
IPR035979 RBD_domain_sf
IPR000504 RRM_dom
PfamiView protein in Pfam
PF00013 KH_1, 4 hits
PF00076 RRM_1, 2 hits
SMARTiView protein in SMART
SM00322 KH, 4 hits
SM00360 RRM, 2 hits
SUPFAMiSSF54791 SSF54791, 4 hits
SSF54928 SSF54928, 1 hit
PROSITEiView protein in PROSITE
PS50084 KH_TYPE_1, 4 hits
PS50102 RRM, 2 hits

Sequences (2+)i

Sequence statusi: Complete.

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

This entry has 2 described isoforms and 1 potential isoform that is computationally mapped.iShow all

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

Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
F8WD15F8WD15_HUMAN
Insulin-like growth factor 2 mRNA-b...
IGF2BP3
81Annotation score:

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti410L → Q in AAD09223 (PubMed:9178771).Curated1
Sequence conflicti410L → Q in AAC35208 (PubMed:9178771).Curated1
Sequence conflicti494V → A in CAH56186 (PubMed:17974005).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0241721 – 381Missing in isoform 2. 1 PublicationAdd BLAST381

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

Similar proteinsi

Entry informationi

Entry nameiIF2B3_HUMAN
AccessioniPrimary (citable) accession number: O00425
Secondary accession number(s): A0A4Z5
, Q63HM0, Q6MZZ2, Q86VB1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 3, 2007
Last sequence update: July 28, 2009
Last modified: September 12, 2018
This is version 161 of the entry and version 2 of the sequence. See 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

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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