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O00425 (IF2B3_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified May 16, 2012. Version 102. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended 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 names
Name:IGF2BP3
Synonyms:IMP3, KOC1, VICKZ3
OrganismHomo sapiens (Human)
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length579 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

RNA-binding protein that act as a regulator of mRNA translation and stability. Binds to the 5'-UTR of the insulin-like growth factor 2 (IGF2) mRNAs. Binds to sequences in the 3'-UTR of CD44 mRNA. Ref.13

Subunit structure

Homodimer and multimer By similarity. Interacts with IGF2BP1. Ref.16

Subcellular location

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. Ref.6 Ref.9 Ref.11 Ref.12 Ref.13 Ref.14 Ref.15

Tissue specificity

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. Ref.1 Ref.5 Ref.6 Ref.8 Ref.11 Ref.12 Ref.14 Ref.15

Domain

The third and fourth KH domains are important for binding to the untranslated region (UTR) of target mRNA. Ref.19

Miscellaneous

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

Sequence similarities

Belongs to the RRM IMP/VICKZ family.

Contains 4 KH domains.

Contains 2 RRM (RNA recognition motif) domains.

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: O00425-1)

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.
Isoform 2 (identifier: O00425-2)

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

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 579579Insulin-like growth factor 2 mRNA-binding protein 3
PRO_0000282538

Regions

Domain2 – 7574RRM 1
Domain81 – 15676RRM 2
Domain195 – 26066KH 1
Domain276 – 34368KH 2
Domain405 – 47066KH 3
Domain487 – 55367KH 4

Amino acid modifications

Modified residue5281Phosphothreonine Ref.17 Ref.18

Natural variations

Alternative sequence1 – 381381Missing in isoform 2.
VSP_024172

Experimental info

Sequence conflict4101L → Q in AAD09223. Ref.1
Sequence conflict4101L → Q in AAC35208. Ref.1
Sequence conflict4941V → A in CAH56186. Ref.2

Secondary structure

1 .............. 579
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified July 28, 2009. Version 2.
Checksum: 78884F56A9D98CDE

FASTA57963,705
        10         20         30         40         50         60 
MNKLYIGNLS ENAAPSDLES IFKDAKIPVS GPFLVKTGYA FVDCPDESWA LKAIEALSGK 

        70         80         90        100        110        120 
IELHGKPIEV EHSVPKRQRI RKLQIRNIPP HLQWEVLDSL LVQYGVVESC EQVNTDSETA 

       130        140        150        160        170        180 
VVNVTYSSKD QARQALDKLN GFQLENFTLK VAYIPDEMAA QQNPLQQPRG RRGLGQRGSS 

       190        200        210        220        230        240 
RQGSPGSVSK QKPCDLPLRL LVPTQFVGAI IGKEGATIRN ITKQTQSKID VHRKENAGAA 

       250        260        270        280        290        300 
EKSITILSTP EGTSAACKSI LEIMHKEAQD IKFTEEIPLK ILAHNNFVGR LIGKEGRNLK 

       310        320        330        340        350        360 
KIEQDTDTKI TISPLQELTL YNPERTITVK GNVETCAKAE EEIMKKIRES YENDIASMNL 

       370        380        390        400        410        420 
QAHLIPGLNL NALGLFPPTS GMPPPTSGPP SAMTPPYPQF EQSETETVHL FIPALSVGAI 

       430        440        450        460        470        480 
IGKQGQHIKQ LSRFAGASIK IAPAEAPDAK VRMVIITGPP EAQFKAQGRI YGKIKEENFV 

       490        500        510        520        530        540 
SPKEEVKLEA HIRVPSFAAG RVIGKGGKTV NELQNLSSAE VVVPRDQTPD ENDQVVVKIT 

       550        560        570 
GHFYACQVAQ RKIQEILTQV KQHQQQKALQ SGPPQSRRK

« Hide

Isoform 2 [UniParc].

Checksum: 69BEB7C296373BE7
Show »

FASTA19821,630

References

« Hide 'large scale' references
[1]"Cloning of a gene highly overexpressed in cancer coding for a novel KH-domain containing protein."
Mueller-Pillasch F., Lacher U., Wallrapp C., Micha A., Zimmerhackl F., Hameister H., Varga G., Friess H., Buechler M., Beger H.G., Vila M.R., Adler G., Gress T.M.
Oncogene 14:2729-2733(1997) [PubMed: 9178771] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), TISSUE SPECIFICITY.
Tissue: Pancreas and Pancreatic cancer.
[2]"The full-ORF clone resource of the German cDNA consortium."
Bechtel S., Rosenfelder H., Duda A., Schmidt C.P., Ernst U., Wellenreuther R., Mehrle A., Schuster C., Bahr A., Bloecker H., Heubner D., Hoerlein A., Michel G., Wedler H., Koehrer K., Ottenwaelder B., Poustka A., Wiemann S., Schupp I.
BMC Genomics 8:399-399(2007) [PubMed: 17974005] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
Tissue: Endometrial tumor.
[3]"The DNA sequence of human chromosome 7."
Hillier L.W., Fulton R.S., Fulton L.A., Graves T.A., Pepin K.H., Wagner-McPherson C., Layman D., Maas J., Jaeger S., Walker R., Wylie K., Sekhon M., Becker M.C., O'Laughlin M.D., Schaller M.E., Fewell G.A., Delehaunty K.D., Miner T.L. expand/collapse author list , Nash W.E., Cordes M., Du H., Sun H., Edwards J., Bradshaw-Cordum H., Ali J., Andrews S., Isak A., Vanbrunt A., Nguyen C., Du F., Lamar B., Courtney L., Kalicki J., Ozersky P., Bielicki L., Scott K., Holmes A., Harkins R., Harris A., Strong C.M., Hou S., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Leonard S., Rohlfing T., Rock S.M., Tin-Wollam A.-M., Abbott A., Minx P., Maupin R., Strowmatt C., Latreille P., Miller N., Johnson D., Murray J., Woessner J.P., Wendl M.C., Yang S.-P., Schultz B.R., Wallis J.W., Spieth J., Bieri T.A., Nelson J.O., Berkowicz N., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Bedell J.A., Mardis E.R., Clifton S.W., Chissoe S.L., Marra M.A., Raymond C., Haugen E., Gillett W., Zhou Y., James R., Phelps K., Iadanoto S., Bubb K., Simms E., Levy R., Clendenning J., Kaul R., Kent W.J., Furey T.S., Baertsch R.A., Brent M.R., Keibler E., Flicek P., Bork P., Suyama M., Bailey J.A., Portnoy M.E., Torrents D., Chinwalla A.T., Gish W.R., Eddy S.R., McPherson J.D., Olson M.V., Eichler E.E., Green E.D., Waterston R.H., Wilson R.K.
Nature 424:157-164(2003) [PubMed: 12853948] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
The MGC Project Team
Genome Res. 14:2121-2127(2004) [PubMed: 15489334] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
Tissue: Eye.
[5]"Expression of the highly conserved RNA binding protein KOC in embryogenesis."
Mueller-Pillasch F., Pohl B., Wilda M., Lacher U., Beil M., Wallrapp C., Hameister H., Knoechel W., Adler G., Gress T.M.
Mech. Dev. 88:95-99(1999) [PubMed: 10525192] [Abstract]
Cited for: TISSUE SPECIFICITY.
[6]"A family of insulin-like growth factor II mRNA-binding proteins represses translation in late development."
Nielsen J., Christiansen J., Lykke-Andersen J., Johnsen A.H., Wewer U.M., Nielsen F.C.
Mol. Cell. Biol. 19:1262-1270(1999) [PubMed: 9891060] [Abstract]
Cited for: GENE NOMENCLATURE, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, RNA-BINDING.
[7]"Autoimmune responses to mRNA binding proteins p62 and Koc in diverse malignancies."
Zhang J.-Y., Chan E.K., Peng X.-X., Lu M., Wang X., Mueller F., Tan E.M.
Clin. Immunol. 100:149-156(2001) [PubMed: 11465943] [Abstract]
Cited for: IDENTIFICATION AS A CARCINOMA ANTIGEN.
[8]"Characterisation of the growth regulating gene IMP3, a candidate for Silver-Russell syndrome."
Monk D., Bentley L., Beechey C., Hitchins M., Peters J., Preece M.A., Stanier P., Moore G.E.
J. Med. Genet. 39:575-581(2002) [PubMed: 12161597] [Abstract]
Cited for: TISSUE SPECIFICITY.
[9]"Nuclear transit of human zipcode-binding protein IMP1."
Nielsen J., Adolph S.K., Rajpert-De Meyts E., Lykke-Andersen J., Koch G., Christiansen J., Nielsen F.C.
Biochem. J. 376:383-391(2003) [PubMed: 12921532] [Abstract]
Cited for: SUBCELLULAR LOCATION.
[10]"VICKZ proteins: a multi-talented family of regulatory RNA-binding proteins."
Yisraeli J.K.
Biol. Cell 97:87-96(2005) [PubMed: 15601260] [Abstract]
Cited for: REVIEW.
[11]"KOC (K homology domain containing protein overexpressed in cancer): a novel molecular marker that distinguishes between benign and malignant lesions of the pancreas."
Yantiss R.K., Woda B.A., Fanger G.R., Kalos M., Whalen G.F., Tada H., Andersen D.K., Rock K.L., Dresser K.
Diagn. Mol. Pathol. 29:188-195(2005) [PubMed: 15644775] [Abstract]
Cited for: SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
[12]"Expression of IGF-II mRNA-binding proteins (IMPs) in gonads and testicular cancer."
Hammer N.A., Hansen T.O., Byskov A.G., Rajpert-De Meyts E., Groendahl M.L., Bredkjaer H.E., Wewer U.M., Christiansen J., Nielsen F.C.
Reproduction 130:203-212(2005) [PubMed: 16049158] [Abstract]
Cited for: SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
[13]"RNA-binding IMPs promote cell adhesion and invadopodia formation."
Vikesaa J., Hansen T.V., Joenson L., Borup R., Wewer U.M., Christiansen J., Nielsen F.C.
EMBO J. 25:1456-1468(2006) [PubMed: 16541107] [Abstract]
Cited for: FUNCTION, RNA-BINDING, SUBCELLULAR LOCATION.
[14]"Analysis of RNA-binding protein IMP3 to predict metastasis and prognosis of renal-cell carcinoma: a retrospective study."
Jiang Z., Chu P.G., Woda B.A., Rock K.L., Liu Q., Hsieh C.-C., Li C., Chen W., Duan H.O., McDougal S., Wu C.-L.
Lancet Oncol. 7:556-564(2006) [PubMed: 16814207] [Abstract]
Cited for: SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
[15]"IMP3 is a novel biomarker for adenocarcinoma in situ of the uterine cervix: an immunohistochemical study in comparison with p16(INK4a) expression."
Li C., Rock K.L., Woda B.A., Jiang Z., Fraire A.E., Dresser K.
Mod. Pathol. 20:242-247(2007) [PubMed: 17192788] [Abstract]
Cited for: SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
[16]"Molecular composition of IMP1 ribonucleoprotein granules."
Joeson L., Vikesaa J., Krogh A., Nielsen L.K., Hansen T., Borup R., Johnsen A.H., Christiansen J., Nielsen F.C.
Mol. Cell. Proteomics 6:798-811(2007) [PubMed: 17289661] [Abstract]
Cited for: INTERACTION WITH IGF2BP1.
[17]"A quantitative atlas of mitotic phosphorylation."
Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P.
Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed: 18669648] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-528, MASS SPECTROMETRY.
Tissue: Cervix carcinoma.
[18]"Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions."
Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K.
Sci. Signal. 2:RA46-RA46(2009) [PubMed: 19690332] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-528, MASS SPECTROMETRY.
Tissue: Leukemic T-cell.
[19]"ZBP1 recognition of beta-actin zipcode induces RNA looping."
Chao J.A., Patskovsky Y., Patel V., Levy M., Almo S.C., Singer R.H.
Genes Dev. 24:148-158(2010) [PubMed: 20080952] [Abstract]
Cited for: RNA-BINDING, DOMAIN.
[20]"Initial characterization of the human central proteome."
Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J.
BMC Syst. Biol. 5:17-17(2011) [PubMed: 21269460] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[21]"Solution structure of RNA binding domain in insulin-like growth factor 2 mRNA-binding protein 3."
RIKEN structural genomics initiative (RSGI)
Submitted (JUN-2007) to the PDB data bank
Cited for: STRUCTURE BY NMR OF 73-161.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		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.
IPIIPI00165467.
IPI00658000.
RefSeqNP_006538.2. NM_006547.2.
UniGeneHs.700696.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
2E44NMR-A73-161[»]
ProteinModelPortalO00425.
SMRO00425. Positions 1-161, 194-562.
ModBaseSearch...

Protein-protein interaction databases

IntActO00425. 7 interactions.
STRINGO00425.

PTM databases

PhosphoSiteO00425.

Proteomic databases

PRIDEO00425.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000258729; ENSP00000258729; ENSG00000136231.
GeneID10643.
KEGGhsa:10643.
UCSCuc003swf.3. human.
uc003swg.3. human.

Organism-specific databases

CTD10643.
GeneCardsGC07M023316.
HGNCHGNC:28868. IGF2BP3.
HPAHPA002037.
MIM608259. gene.
neXtProtNX_O00425.
PharmGKBPA128394576.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG249985.
GeneTreeENSGT00530000063171.
HOGENOMHOG000000675.
HOVERGENHBG052725.
InParanoidO00425.
KOK13197.
OMAIKEENFV.
OrthoDBEOG405S0T.
PhylomeDBO00425.

Enzyme and pathway databases

ReactomeREACT_116125. Disease.

Gene expression databases

ArrayExpressO00425.
BgeeO00425.
CleanExHS_IGF2BP3.
HS_IMP3.
GenevestigatorO00425.

Family and domain databases

Gene3DG3DSA:3.30.70.330. a_b_plait_nuc_bd. 1 hit.
InterProIPR004087. KH_dom.
IPR004088. KH_dom_type_1.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamPF00013. KH_1. 4 hits.
PF00076. RRM_1. 1 hit.
[Graphical view]
SMARTSM00322. KH. 4 hits.
SM00360. RRM. 2 hits.
[Graphical view]
PROSITEPS50084. KH_TYPE_1. 4 hits.
PS50102. RRM. 2 hits.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceO00425.
NextBio40451.
SOURCESearch...

Entry information

Entry nameIF2B3_HUMAN
AccessionPrimary (citable) accession number: O00425
Secondary accession number(s): A0A4Z5 expand/collapse secondary AC list , Q63HM0, Q6MZZ2, Q86VB1
Entry history
Integrated into UniProtKB/Swiss-Prot: April 3, 2007
Last sequence update: July 28, 2009
Last modified: May 16, 2012
This is version 102 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

Human chromosome 7

Human chromosome 7: entries, gene names and cross-references to MIM

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents