Reviewed, UniProtKB/Swiss-Prot Q9JIL3 (ILF3_RAT)

Names and origin

Protein names

Recommended name:
    Interleukin enhancer-binding factor 3

Gene names

Name:

Ilf3

Organism

Rattus norvegicus (Rat)

Taxonomic identifier

10116 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Rattus

Protein attributes

Sequence length	897 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	May facilitate double-stranded RNA-regulated gene expression at the level of post-transcription. Can act as a translation inhibitory protein which binds to coding sequences of acid beta-glucosidase (GCase) and other mRNAs and functions at the initiation phase of GCase mRNA translation, probably by inhibiting its binding to polysomes. Can promote the formation of stable DNA-dependent protein kinase holoenzyme complexes on DNA By similarity. Can regulate protein arginine N-methyltransferase 1 activity.
Subunit structure	Identified in a mRNP complex, at least composed of DHX9, DDX3X, ELAVL1, HNRNPU, IGF2BP1, ILF3, PABPC1, PCBP2, PTBP2, STAU1, STAU2, SYNCRIP and YBX1. Identified in a mRNP granule complex, at least composed of ACTB, ACTN4, DHX9, ERG, HNRNPA1, HNRNPA2B1, HNRNPAB, HNRNPD, HNRNPL, HNRNPR, HNRNPU, HSPA1, HSPA8, IGF2BP1, ILF2, ILF3, NCBP1, NCL, PABPC1, PABPC4, PABPN1, RPLP0, RPS3, RPS3A, RPS4X, RPS8, RPS9, SYNCRIP, TROVE2, YBX1 and untranslated mRNAs. Interacts with FUS and SMN proteins and with PRMT1. Forms a complex with ILF2. Can also bind to PRKDC/XRCC7: this may stabilize the interaction of PRKDC/XRCC7 and the heterodimeric complex of G22P1/KU70 and XRCC5/KU80. Forms a heteromeric complex with ZNF346 and ILF3. Found in a nuclear export complex with XPO5, ILF3, Ran and double-stranded RNA or double-stranded minihelix VA1 RNA. Found in a nuclear export complex with XPO5, RAN, ILF3, ZNF346 and double-stranded RNA. Interacts with XPO5 and ZNF346 By similarity. Forms a complex with ILF2, YLPM1, KHDRBS1, RBMX, NCOA5 and PPP1CA By similarity.
Subcellular location	Nucleus › nucleolus By similarity. Cytoplasm By similarity. Note: Localized in cytoplasmic mRNP granules containing untranslated mRNAs By similarity.
Post-translational modification	Phosphorylated by RNA-dependent protein kinase (EIF2AK2) By similarity. Methylated by protein arginine N-methyltransferase 1.
Sequence similarities	Contains 2 DRBM (double-stranded RNA-binding) domains. Contains 1 DZF domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Cytoplasm Nucleus
Coding sequence diversity	Alternative splicing
Domain	Repeat
Ligand	DNA-binding RNA-binding
PTM	Acetylation Methylation Phosphoprotein
Gene Ontology (GO)
Biological process	protein amino acid methylation Ref.1 Inferred from direct assay. Source: MGI regulation of transcription Inferred from electronic annotation. Source: UniProtKB-KW transcription Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleolus Inferred from electronic annotation. Source: UniProtKB-SubCell ribonucleoprotein complex Inferred from sequence or structural similarity. Source: UniProtKB
Molecular function	double-stranded RNA binding Inferred from electronic annotation. Source: InterPro protein binding Ref.1 Inferred from physical interaction. Source: IntAct transcription factor activity Ref.1 Traceable author statement. Source: RGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
Prmt1	Q63009	1	EBI-78714,EBI-78708

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q9JIL3-1)

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: Q9JIL3-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-1: M → MALYHHHFITRRRR

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 897	897	Interleukin enhancer-binding factor 3		PRO_0000126072
Regions
	Domain	94 – 342	249	DZF
	Domain	398 – 467	70	DRBM 1
	Domain	524 – 590	67	DRBM 2
	Region	609 – 897	289	Interaction with PRMT1
	Motif	371 – 389	19	Bipartite nuclear localization signal Potential
	Compositional bias	385 – 389	5	Poly-Lys
	Compositional bias	634 – 637	4	Poly-Pro
	Compositional bias	640 – 659	20	Arg/Gly-rich
	Compositional bias	701 – 710	10	Poly-Gly
	Compositional bias	796 – 800	5	Poly-Gly
Amino acid modifications
	Modified residue	81	1	N6-acetyllysine By similarity
	Modified residue	100	1	N6-acetyllysine By similarity
	Modified residue	190	1	Phosphoserine By similarity
	Modified residue	368	1	Phosphothreonine By similarity
	Modified residue	382	1	Phosphoserine By similarity
	Modified residue	384	1	Phosphoserine By similarity
	Modified residue	460	1	N6-acetyllysine By similarity
	Modified residue	482	1	Phosphoserine By similarity
	Modified residue	579	1	Phosphotyrosine By similarity
	Modified residue	609	1	Omega-N-methylated arginine By similarity
	Modified residue	794	1	Phosphoserine By similarity
	Modified residue	812	1	Phosphoserine By similarity
	Modified residue	814	1	Phosphoserine By similarity
	Modified residue	863	1	Phosphoserine By similarity
Natural variations
	Alternative sequence	1	1	M → MALYHHHFITRRRR in isoform 2.		VSP_013409

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified April 12, 2005. Version 2. Checksum: ACD800D1858539BB	FASTA	897	95,935
	10 20 30 40 50 60 MRPMRIFVND DRHVMAKHSS VYPTQEELEA VQNMVSHTER ALKAVSDWID EQEKGNSELS 70 80 90 100 110 120 EAENMDTPPD DESKEGAGEQ KAEHMTRTLR GVMRVGLVAK GLLLKGDLDL ELVLLCKEKP 130 140 150 160 170 180 TTALLDKVAD NLAIQLTTVT EDKYEILQSV DDAAIVIKNT KEPPLSLTIH LTSPVVREEM 190 200 210 220 230 240 EKVLAGETLS VNDPPDVLDR QKCLAALASL RHAKWFQARA NGLKSCVIVI RVLRDLCTRV 250 260 270 280 290 300 PTWGPLRGWP LELLCEKSIG TANRPMGAGE ALRRVLECLA SGIVMPDGSG IYDPCEKEAT 310 320 330 340 350 360 DAIGHLDRQQ REDITQSAQH ALRLAAFGQL HKVLGMDPLP SKMPKKPKNE NPVDYTVQIP 370 380 390 400 410 420 PSTTYAITPM KRPMEEDGEE KSPSKKKKKI QKKEEKAEPP QAMNALMRLN QLKPGLQYKL 430 440 450 460 470 480 ISQTGPVHAP IFTMSVEVDG STFEASGPSK KTAKLHVAVK VLQDMGLPTG AEGRDSSKGE 490 500 510 520 530 540 DSAEESDGKP AVVAPPPVVE AVSNPSSVFP SDATTEQGPI LTKHGKNPVM ELNEKRRGLK 550 560 570 580 590 600 YELISETGGS HDKRFVMEVE VDGQKFQGAG SNKKVAKAYA ALAALEKLFP DAPLALEANK 610 620 630 640 650 660 KKRAPVPVRG GPKFAAKPHN PGFGMGGPMH NEAPPPPNIR GRGRGGNIRG RGRGRGFGGT 670 680 690 700 710 720 NHGGGYMNAG AGYGSYGYSS NSATAGYSQF YSNGGHYGNA GGGGSGGGGG SSSYSSYYQG 730 740 750 760 770 780 DSYNSPVPPK HAGKKPLHGG QQKPSYSSGY QSHQGQQQPY NQSQYSSYGT PQGKQKGYGH 790 800 810 820 830 840 GQGSYSSYSN SYNSPGGGGG SDYSYDSKFN YSGSGGRSGG NSYGSSGSSY NTGSHGGYGA 850 860 870 880 890 GSGGSSSYQG KQGGYSSQSN YSSPGSSQSY SGPASSYQSS QGGYSRNTEH SMNYQYR
	Isoform 2. Checksum: D6AB97A4B52E442A	FASTA	910	97,680
	10 20 30 40 50 60 MALYHHHFIT RRRRRPMRIF VNDDRHVMAK HSSVYPTQEE LEAVQNMVSH TERALKAVSD 70 80 90 100 110 120 WIDEQEKGNS ELSEAENMDT PPDDESKEGA GEQKAEHMTR TLRGVMRVGL VAKGLLLKGD 130 140 150 160 170 180 LDLELVLLCK EKPTTALLDK VADNLAIQLT TVTEDKYEIL QSVDDAAIVI KNTKEPPLSL 190 200 210 220 230 240 TIHLTSPVVR EEMEKVLAGE TLSVNDPPDV LDRQKCLAAL ASLRHAKWFQ ARANGLKSCV 250 260 270 280 290 300 IVIRVLRDLC TRVPTWGPLR GWPLELLCEK SIGTANRPMG AGEALRRVLE CLASGIVMPD 310 320 330 340 350 360 GSGIYDPCEK EATDAIGHLD RQQREDITQS AQHALRLAAF GQLHKVLGMD PLPSKMPKKP 370 380 390 400 410 420 KNENPVDYTV QIPPSTTYAI TPMKRPMEED GEEKSPSKKK KKIQKKEEKA EPPQAMNALM 430 440 450 460 470 480 RLNQLKPGLQ YKLISQTGPV HAPIFTMSVE VDGSTFEASG PSKKTAKLHV AVKVLQDMGL 490 500 510 520 530 540 PTGAEGRDSS KGEDSAEESD GKPAVVAPPP VVEAVSNPSS VFPSDATTEQ GPILTKHGKN 550 560 570 580 590 600 PVMELNEKRR GLKYELISET GGSHDKRFVM EVEVDGQKFQ GAGSNKKVAK AYAALAALEK 610 620 630 640 650 660 LFPDAPLALE ANKKKRAPVP VRGGPKFAAK PHNPGFGMGG PMHNEAPPPP NIRGRGRGGN 670 680 690 700 710 720 IRGRGRGRGF GGTNHGGGYM NAGAGYGSYG YSSNSATAGY SQFYSNGGHY GNAGGGGSGG 730 740 750 760 770 780 GGGSSSYSSY YQGDSYNSPV PPKHAGKKPL HGGQQKPSYS SGYQSHQGQQ QPYNQSQYSS 790 800 810 820 830 840 YGTPQGKQKG YGHGQGSYSS YSNSYNSPGG GGGSDYSYDS KFNYSGSGGR SGGNSYGSSG 850 860 870 880 890 900 SSYNTGSHGG YGAGSGGSSS YQGKQGGYSS QSNYSSPGSS QSYSGPASSY QSSQGGYSRN 910 TEHSMNYQYR

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Protein-arginine methyltransferase I, the predominant protein-arginine methyltransferase in cells, interacts with and is regulated by interleukin enhancer-binding factor 3." Tang J., Kao P.N., Herschman H.R. J. Biol. Chem. 275:19866-19876(2000) [PubMed: 10749851] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2).
[2]	"Genome sequence of the Brown Norway rat yields insights into mammalian evolution." Gibbs R.A., Weinstock G.M., Metzker M.L., Muzny D.M., Sodergren E.J., Scherer S., Scott G., Steffen D., Worley K.C., Burch P.E., Okwuonu G., Hines S., Lewis L., Deramo C., Delgado O., Dugan-Rocha S., Miner G., Morgan M. , Hawes A., Gill R., Holt R.A., Adams M.D., Amanatides P.G., Baden-Tillson H., Barnstead M., Chin S., Evans C.A., Ferriera S., Fosler C., Glodek A., Gu Z., Jennings D., Kraft C.L., Nguyen T., Pfannkoch C.M., Sitter C., Sutton G.G., Venter J.C., Woodage T., Smith D., Lee H.-M., Gustafson E., Cahill P., Kana A., Doucette-Stamm L., Weinstock K., Fechtel K., Weiss R.B., Dunn D.M., Green E.D., Blakesley R.W., Bouffard G.G., De Jong P.J., Osoegawa K., Zhu B., Marra M., Schein J., Bosdet I., Fjell C., Jones S., Krzywinski M., Mathewson C., Siddiqui A., Wye N., McPherson J., Zhao S., Fraser C.M., Shetty J., Shatsman S., Geer K., Chen Y., Abramzon S., Nierman W.C., Havlak P.H., Chen R., Durbin K.J., Egan A., Ren Y., Song X.-Z., Li B., Liu Y., Qin X., Cawley S., Cooney A.J., D'Souza L.M., Martin K., Wu J.Q., Gonzalez-Garay M.L., Jackson A.R., Kalafus K.J., McLeod M.P., Milosavljevic A., Virk D., Volkov A., Wheeler D.A., Zhang Z., Bailey J.A., Eichler E.E., Tuzun E., Birney E., Mongin E., Ureta-Vidal A., Woodwark C., Zdobnov E., Bork P., Suyama M., Torrents D., Alexandersson M., Trask B.J., Young J.M., Huang H., Wang H., Xing H., Daniels S., Gietzen D., Schmidt J., Stevens K., Vitt U., Wingrove J., Camara F., Mar Alba M., Abril J.F., Guigo R., Smit A., Dubchak I., Rubin E.M., Couronne O., Poliakov A., Huebner N., Ganten D., Goesele C., Hummel O., Kreitler T., Lee Y.-A., Monti J., Schulz H., Zimdahl H., Himmelbauer H., Lehrach H., Jacob H.J., Bromberg S., Gullings-Handley J., Jensen-Seaman M.I., Kwitek A.E., Lazar J., Pasko D., Tonellato P.J., Twigger S., Ponting C.P., Duarte J.M., Rice S., Goodstadt L., Beatson S.A., Emes R.D., Winter E.E., Webber C., Brandt P., Nyakatura G., Adetobi M., Chiaromonte F., Elnitski L., Eswara P., Hardison R.C., Hou M., Kolbe D., Makova K., Miller W., Nekrutenko A., Riemer C., Schwartz S., Taylor J., Yang S., Zhang Y., Lindpaintner K., Andrews T.D., Caccamo M., Clamp M., Clarke L., Curwen V., Durbin R.M., Eyras E., Searle S.M., Cooper G.M., Batzoglou S., Brudno M., Sidow A., Stone E.A., Payseur B.A., Bourque G., Lopez-Otin C., Puente X.S., Chakrabarti K., Chatterji S., Dewey C., Pachter L., Bray N., Yap V.B., Caspi A., Tesler G., Pevzner P.A., Haussler D., Roskin K.M., Baertsch R., Clawson H., Furey T.S., Hinrichs A.S., Karolchik D., Kent W.J., Rosenbloom K.R., Trumbower H., Weirauch M., Cooper D.N., Stenson P.D., Ma B., Brent M., Arumugam M., Shteynberg D., Copley R.R., Taylor M.S., Riethman H., Mudunuri U., Peterson J., Guyer M., Felsenfeld A., Old S., Mockrin S., Collins F.S. Nature 428:493-521(2004) [PubMed: 15057822] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA] (ISOFORM 1). Strain: Brown Norway.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AF220102 mRNA. Translation: AAF31446.1. AABR03063190 Genomic DNA. No translation available. AABR03065470 Genomic DNA. No translation available.
IPI	IPI00200674. IPI00555218.
RefSeq	NP_445864.1.
UniGene	Rn.203881
3D structure databases
SMR	Q9JIL3. Positions 403-470.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q9JIL3. 1 interaction.
STRING	Q9JIL3.
PTM databases
PhosphoSite	Q9JIL3.
Genome annotation databases
Ensembl	ENSRNOT00000009354; ENSRNOP00000009354; ENSRNOG00000022741; Rattus norvegicus. [Genome view] ENSRNOT00000064993; ENSRNOP00000062871; ENSRNOG00000022741; Rattus norvegicus. [Genome view]
GeneID	84472.
KEGG	rno:84472.
UCSC	NM_053412. rat.
Organism-specific databases
CTD	84472.
RGD	619734. Ilf3.
Phylogenomic databases
HOVERGEN	Q9JIL3.
Gene expression databases
ArrayExpress	Q9JIL3.
Genevestigator	Q9JIL3.
GermOnline	ENSRNOG00000022741. Rattus norvegicus.
Family and domain databases
InterPro	IPR001159. Ds-RNA_bd. IPR014720. dsRNA-bd-like. IPR006561. DZF. [Graphical view]
Gene3D	G3DSA:3.30.160.20. dsRNA-bd-like. 2 hits.
Pfam	PF00035. dsrm. 2 hits. PF07528. DZF. 1 hit. [Graphical view]
SMART	SM00358. DSRM. 2 hits. SM00572. DZF. 1 hit. [Graphical view]
PROSITE	PS50137. DS_RBD. 2 hits. [Graphical view]
ProtoNet	Search...
Other Resources
NextBio	616960.

Entry information

Entry name

ILF3_RAT

Accession

Primary (citable) accession number: Q9JIL3

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 31, 2002
Last sequence update:	April 12, 2005
Last modified:	November 24, 2009
This is version 64 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)