CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-000071
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Insulin-like growth factor 2 mRNA-binding protein 3 
Protein Synonyms/Alias
 IGF2 mRNA-binding protein 3; IMP-3; IGF-II mRNA-binding protein 3; KH domain-containing protein overexpressed in cancer; hKOC; VICKZ family member 3 
Gene Name
 IGF2BP3 
Gene Synonyms/Alias
 IMP3; KOC1; VICKZ3 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
23SDLESIFKDAKIPVSubiquitination[1, 2, 3]
138QARQALDKLNGFQLEubiquitination[2, 4]
190GSPGSVSKQKPCDLPubiquitination[2]
192PGSVSKQKPCDLPLRubiquitination[2, 5]
213FVGAIIGKEGATIRNubiquitination[1, 2, 3, 4, 5]
223ATIRNITKQTQSKIDubiquitination[1, 6]
234SKIDVHRKENAGAAEubiquitination[2]
272HKEAQDIKFTEEIPLubiquitination[1, 2, 3, 4, 5, 7]
280FTEEIPLKILAHNNFubiquitination[1, 2, 4, 5, 7]
429GKQGQHIKQLSRFAGubiquitination[2]
440RFAGASIKIAPAEAPubiquitination[1, 2, 3, 4, 5]
450PAEAPDAKVRMVIITubiquitination[1, 2, 3, 4, 5, 7, 8, 9]
465GPPEAQFKAQGRIYGubiquitination[2, 7]
483EENFVSPKEEVKLEAubiquitination[2]
508RVIGKGGKTVNELQNubiquitination[2, 3]
552ACQVAQRKIQEILTQubiquitination[2]
561QEILTQVKQHQQQKAubiquitination[2]
567VKQHQQQKALQSGPPubiquitination[1, 2, 3, 5]
Reference
 [1] Systematic and quantitative assessment of the ubiquitin-modified proteome.
 Kim W, Bennett EJ, Huttlin EL, Guo A, Li J, Possemato A, Sowa ME, Rad R, Rush J, Comb MJ, Harper JW, Gygi SP.
 Mol Cell. 2011 Oct 21;44(2):325-40. [PMID: 21906983]
 [2] Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.
 Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA.
 Mol Cell Proteomics. 2013 Mar;12(3):825-31. [PMID: 23266961]
 [3] Landscape of the PARKIN-dependent ubiquitylome in response to mitochondrial depolarization.
 Sarraf SA, Raman M, Guarani-Pereira V, Sowa ME, Huttlin EL, Gygi SP, Harper JW.
 Nature. 2013 Apr 18;496(7445):372-6. [PMID: 23503661]
 [4] A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles.
 Wagner SA, Beli P, Weinert BT, Nielsen ML, Cox J, Mann M, Choudhary C.
 Mol Cell Proteomics. 2011 Oct;10(10):M111.013284. [PMID: 21890473]
 [5] Integrated proteomic analysis of post-translational modifications by serial enrichment.
 Mertins P, Qiao JW, Patel J, Udeshi ND, Clauser KR, Mani DR, Burgess MW, Gillette MA, Jaffe JD, Carr SA.
 Nat Methods. 2013 Jul;10(7):634-7. [PMID: 23749302]
 [6] Proteome-wide identification of ubiquitylation sites by conjugation of engineered lysine-less ubiquitin.
 Oshikawa K, Matsumoto M, Oyamada K, Nakayama KI.
 J Proteome Res. 2012 Feb 3;11(2):796-807. [PMID: 22053931]
 [7] Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition.
 Udeshi ND, Mani DR, Eisenhaure T, Mertins P, Jaffe JD, Clauser KR, Hacohen N, Carr SA.
 Mol Cell Proteomics. 2012 May;11(5):148-59. [PMID: 22505724]
 [8] Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level.
 Danielsen JM, Sylvestersen KB, Bekker-Jensen S, Szklarczyk D, Poulsen JW, Horn H, Jensen LJ, Mailand N, Nielsen ML.
 Mol Cell Proteomics. 2011 Mar;10(3):M110.003590. [PMID: 21139048]
 [9] Ubiquitin ligase substrate identification through quantitative proteomics at both the protein and peptide levels.
 Lee KA, Hammerle LP, Andrews PS, Stokes MP, Mustelin T, Silva JC, Black RA, Doedens JR.
 J Biol Chem. 2011 Dec 2;286(48):41530-8. [PMID: 21987572] 
Functional Description
 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. 
Sequence Annotation
 DOMAIN 2 75 RRM 1.
 DOMAIN 81 156 RRM 2.
 DOMAIN 195 260 KH 1.
 DOMAIN 276 343 KH 2.
 DOMAIN 405 470 KH 3.
 DOMAIN 487 553 KH 4.
 MOD_RES 184 184 Phosphoserine.
 MOD_RES 187 187 Phosphoserine.
 MOD_RES 189 189 Phosphoserine.
 MOD_RES 528 528 Phosphothreonine.  
Keyword
 3D-structure; Alternative splicing; Complete proteome; Cytoplasm; Nucleus; Phosphoprotein; Reference proteome; Repeat; RNA-binding; Translation regulation. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 579 AA 
Protein Sequence
MNKLYIGNLS ENAAPSDLES IFKDAKIPVS GPFLVKTGYA FVDCPDESWA LKAIEALSGK 60
IELHGKPIEV EHSVPKRQRI RKLQIRNIPP HLQWEVLDSL LVQYGVVESC EQVNTDSETA 120
VVNVTYSSKD QARQALDKLN GFQLENFTLK VAYIPDEMAA QQNPLQQPRG RRGLGQRGSS 180
RQGSPGSVSK QKPCDLPLRL LVPTQFVGAI IGKEGATIRN ITKQTQSKID VHRKENAGAA 240
EKSITILSTP EGTSAACKSI LEIMHKEAQD IKFTEEIPLK ILAHNNFVGR LIGKEGRNLK 300
KIEQDTDTKI TISPLQELTL YNPERTITVK GNVETCAKAE EEIMKKIRES YENDIASMNL 360
QAHLIPGLNL NALGLFPPTS GMPPPTSGPP SAMTPPYPQF EQSETETVHL FIPALSVGAI 420
IGKQGQHIKQ LSRFAGASIK IAPAEAPDAK VRMVIITGPP EAQFKAQGRI YGKIKEENFV 480
SPKEEVKLEA HIRVPSFAAG RVIGKGGKTV NELQNLSSAE VVVPRDQTPD ENDQVVVKIT 540
GHFYACQVAQ RKIQEILTQV KQHQQQKALQ SGPPQSRRK 579 
Gene Ontology
 GO:0005829; C:cytosol; TAS:Reactome.
 GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
 GO:0003730; F:mRNA 3'-UTR binding; IDA:UniProtKB.
 GO:0048027; F:mRNA 5'-UTR binding; IDA:BHF-UCL.
 GO:0000166; F:nucleotide binding; IEA:InterPro.
 GO:0045182; F:translation regulator activity; ISS:BHF-UCL.
 GO:0009653; P:anatomical structure morphogenesis; TAS:ProtInc.
 GO:0017148; P:negative regulation of translation; ISS:BHF-UCL.
 GO:0042035; P:regulation of cytokine biosynthetic process; IC:BHF-UCL.
 GO:0006412; P:translation; TAS:ProtInc. 
Interpro
 IPR004087; KH_dom.
 IPR004088; KH_dom_type_1.
 IPR012677; Nucleotide-bd_a/b_plait.
 IPR000504; RRM_dom. 
Pfam
 PF00013; KH_1
 PF00076; RRM_1 
SMART
 SM00322; KH
 SM00360; RRM 
PROSITE
 PS50084; KH_TYPE_1
 PS50102; RRM 
PRINTS