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Protein

Interleukin enhancer-binding factor 3

Gene

Ilf3

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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 regulate protein arginine N-methyltransferase 1 activity. Can promote the formation of stable DNA-dependent protein kinase holoenzyme complexes on DNA (By similarity). The phosphorylated form at Thr-188 and Thr-315, in concert with EIF2AK2/PKR can inhibit vesicular stomatitis virus (VSV) replication.By similarity1 Publication

GO - Molecular functioni

GO - Biological processi

  • defense response to virus Source: UniProtKB-KW
  • negative regulation of transcription, DNA-templated Source: MGI
  • negative regulation of translation Source: UniProtKB
  • negative regulation of viral genome replication Source: UniProtKB
  • positive regulation of transcription, DNA-templated Source: MGI
  • protein methylation Source: MGI
  • protein phosphorylation Source: UniProtKB
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

Antiviral defense, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Interleukin enhancer-binding factor 3
Gene namesi
Name:Ilf3
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 9

Organism-specific databases

MGIiMGI:1339973. Ilf3.

Subcellular locationi

  • Nucleusnucleolus By similarity
  • Cytoplasm 1 Publication
  • Nucleus 1 Publication

  • Note: The unphosphorylated form is retained in the nucleus by ILF2. Phosphorylation at Thr-188 and Thr-315 causes the dissociation of ILF2 from the ILF2-ILF3 complex resulting in a cytoplasmic sequestration of ILF3. Localized in cytoplasmic mRNP granules containing untranslated mRNAs.

GO - Cellular componenti

  • cytoplasm Source: UniProtKB
  • intracellular ribonucleoprotein complex Source: UniProtKB
  • membrane Source: MGI
  • mitochondrion Source: MGI
  • nucleolus Source: MGI
  • nucleoplasm Source: MGI
  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001260711 – 898Interleukin enhancer-binding factor 3Add BLAST898

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei67PhosphothreonineCombined sources1
Modified residuei100N6-acetyllysineBy similarity1
Modified residuei188Phosphothreonine; by PKR1 Publication1
Modified residuei190PhosphoserineCombined sources1
Modified residuei315Phosphothreonine; by PKR1 Publication1
Cross-linki348Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO1)By similarity
Modified residuei382PhosphoserineBy similarity1
Modified residuei384PhosphoserineBy similarity1
Modified residuei460N6-acetyllysineBy similarity1
Modified residuei476PhosphoserineBy similarity1
Modified residuei477PhosphoserineBy similarity1
Modified residuei482PhosphoserineCombined sources1
Modified residuei486PhosphoserineCombined sources1
Modified residuei592PhosphothreonineBy similarity1
Modified residuei609Omega-N-methylated arginineBy similarity1
Modified residuei794PhosphoserineBy similarity1
Modified residuei812PhosphoserineBy similarity1
Modified residuei814PhosphoserineBy similarity1
Modified residuei818PhosphoserineBy similarity1

Post-translational modificationi

Phosphorylated at Thr-188 and Thr-315 by PKR in response to RNA viruses. This phosphorylation results in the dissociation of ILF2 from the ILF2-ILF3 complex resulting in a cytoplasmic sequestration of ILF3 where it can bind to viral RNAs and impede viral replication.1 Publication
Methylated by protein arginine N-methyltransferase 1.By similarity

Keywords - PTMi

Acetylation, Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ9Z1X4.
PaxDbiQ9Z1X4.
PeptideAtlasiQ9Z1X4.
PRIDEiQ9Z1X4.

PTM databases

iPTMnetiQ9Z1X4.
PhosphoSitePlusiQ9Z1X4.

Expressioni

Tissue specificityi

Ubiquitous. Expressed at high levels in the thymus, testis, ovary and at lower levelss in the spleen.

Gene expression databases

BgeeiENSMUSG00000032178.
CleanExiMM_ILF3.
ExpressionAtlasiQ9Z1X4. baseline and differential.
GenevisibleiQ9Z1X4. MM.

Interactioni

Subunit structurei

Identified in a IGF2BP1-dependent mRNP granule complex containing 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 XRCC6/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. Forms a complex with ILF2, YLPM1, KHDRBS1, RBMX, NCOA5 and PPP1CA Interacts with AGO1 and AGO2 (By similarity).By similarity

Protein-protein interaction databases

BioGridi200648. 5 interactors.
IntActiQ9Z1X4. 3 interactors.
MINTiMINT-4098601.
STRINGi10090.ENSMUSP00000065770.

Structurei

Secondary structure

1898
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi8 – 21Combined sources14
Helixi25 – 53Combined sources29
Beta strandi89 – 94Combined sources6
Helixi96 – 100Combined sources5
Beta strandi109 – 118Combined sources10
Helixi122 – 136Combined sources15
Turni137 – 139Combined sources3
Beta strandi145 – 149Combined sources5
Turni150 – 153Combined sources4
Beta strandi154 – 158Combined sources5
Beta strandi160 – 163Combined sources4
Beta strandi166 – 172Combined sources7
Helixi174 – 184Combined sources11
Helixi200 – 219Combined sources20
Turni220 – 222Combined sources3
Helixi226 – 239Combined sources14
Helixi241 – 246Combined sources6
Helixi249 – 260Combined sources12
Beta strandi262 – 264Combined sources3
Helixi268 – 280Combined sources13
Turni281 – 284Combined sources4
Beta strandi285 – 288Combined sources4
Turni302 – 305Combined sources4
Helixi308 – 326Combined sources19
Helixi330 – 333Combined sources4
Beta strandi363 – 365Combined sources3
Helixi405 – 412Combined sources8
Beta strandi419 – 425Combined sources7
Beta strandi427 – 429Combined sources3
Beta strandi431 – 438Combined sources8
Beta strandi441 – 449Combined sources9
Helixi450 – 465Combined sources16
Turni523 – 525Combined sources3
Helixi528 – 535Combined sources8
Beta strandi542 – 547Combined sources6
Beta strandi549 – 551Combined sources3
Beta strandi554 – 561Combined sources8
Beta strandi564 – 572Combined sources9
Helixi573 – 588Combined sources16

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4AT7X-ray1.90B1-381[»]
4AT8X-ray2.69B/D1-381[»]
4AT9X-ray2.80B1-381[»]
4ATBX-ray3.10B/D1-381[»]
5DV7X-ray3.50C4-701[»]
ProteinModelPortaliQ9Z1X4.
SMRiQ9Z1X4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini5 – 378DZFPROSITE-ProRule annotationAdd BLAST374
Domaini398 – 467DRBM 1PROSITE-ProRule annotationAdd BLAST70
Domaini524 – 590DRBM 2PROSITE-ProRule annotationAdd BLAST67

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni609 – 898Interaction with PRMT1By similarityAdd BLAST290

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi371 – 389Bipartite nuclear localization signalSequence analysisAdd BLAST19

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi385 – 389Poly-Lys5
Compositional biasi634 – 637Poly-Pro4
Compositional biasi640 – 659Arg/Gly-richAdd BLAST20
Compositional biasi701 – 710Poly-Gly10
Compositional biasi796 – 800Poly-Gly5

Sequence similaritiesi

Contains 2 DRBM (double-stranded RNA-binding) domains.PROSITE-ProRule annotation
Contains 1 DZF domain.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG3792. Eukaryota.
ENOG410XPBY. LUCA.
GeneTreeiENSGT00550000074528.
HOGENOMiHOG000232164.
HOVERGENiHBG069915.
InParanoidiQ9Z1X4.
KOiK13090.
OMAiQSQYSNY.
OrthoDBiEOG091G022L.
PhylomeDBiQ9Z1X4.
TreeFamiTF320194.

Family and domain databases

Gene3Di3.30.160.20. 2 hits.
InterProiIPR014720. dsRBD_dom.
IPR006561. DZF_dom.
IPR033099. ILF3/NF90.
[Graphical view]
PANTHERiPTHR10910:SF34. PTHR10910:SF34. 2 hits.
PfamiPF00035. dsrm. 2 hits.
PF07528. DZF. 1 hit.
[Graphical view]
SMARTiSM00358. DSRM. 2 hits.
SM00572. DZF. 1 hit.
[Graphical view]
PROSITEiPS50137. DS_RBD. 2 hits.
PS51703. DZF. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9Z1X4-1) [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
MRPMRIFVND DRHVMAKHSS VYPTQEELEA VQNMVSHTER ALKAVSDWID
60 70 80 90 100
EQEKGNSELS EAENMDTPPD DESKEGAGEQ KAEHMTRTLR GVMRVGLVAK
110 120 130 140 150
GLLLKGDLDL ELVLLCKEKP TTALLDKVAD NLAIQLTTVT EDKYEILQSV
160 170 180 190 200
DDAAIVIKNT KEPPLSLTIH LTSPVVREEM EKVLAGETLS VNDPPDVLDR
210 220 230 240 250
QKCLAALASL RHAKWFQARA NGLKSCVIVI RVLRDLCTRV PTWGPLRGWP
260 270 280 290 300
LELLCEKSIG TANRPMGAGE ALRRVLECLA SGIVMPDGSG IYDPCEKEAT
310 320 330 340 350
DAIGHLDRQQ REDITQSAQH ALRLAAFGQL HKVLGMDPLP SKMPKKPKNE
360 370 380 390 400
NPVDYTVQIP PSTTYAITPM KRPMEEDGEE KSPSKKKKKI QKKEEKADPP
410 420 430 440 450
QAMNALMRLN QLKPGLQYKL ISQTGPVHAP IFTMSVEVDG SNFEASGPSK
460 470 480 490 500
KTAKLHVAVK VLQDMGLPTG AEGRDSSKGE DSAEESDGKP AIVAPPPVVE
510 520 530 540 550
AVSNPSSVFP SDATTEQGPI LTKHGKNPVM ELNEKRRGLK YELISETGGS
560 570 580 590 600
HDKRFVMEVE VDGQKFQGAG SNKKVAKAYA ALAALEKLFP DTPLALEANK
610 620 630 640 650
KKRTPVPVRG GPKFAAKPHN PGFGMGGPMH NEVPPPPNIR GRGRGGNIRG
660 670 680 690 700
RGRGRGFGGA NHGGGYMNAG AGYGSYGYSS NSATAGYSQF YSNGGHSGNA
710 720 730 740 750
GGGGSGGGGG SSSYSSYYQG DSYNSPVPPK HAGKKPLHGG QQKASYSSGY
760 770 780 790 800
QSHQGQQQPY NQSQYSSYGT PQGKQKGYGH GQGSYSSYSN SYNSPGGGGG
810 820 830 840 850
SDYSYDSKFN YSGSGGRSGG NSYGSSGSSS YNTGSHGGYG TGSGGSSSYQ
860 870 880 890
GKQGGYSSQS NYSSPGSSQS YSGPASSYQS SQGGYSRNTE HSMNYQYR
Length:898
Mass (Da):96,021
Last modified:April 12, 2005 - v2
Checksum:i171B31100D1181F7
GO
Isoform 2 (identifier: Q9Z1X4-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-1: M → MALYHHHFITRRRR
     689-703: QFYSNGGHSGNAGGG → DFFTDCYGYHDFGAS
     704-898: Missing.

Show »
Length:716
Mass (Da):78,093
Checksum:i31524B0E69250CCB
GO
Isoform 3 (identifier: Q9Z1X4-3) [UniParc]FASTAAdd to basket

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

Show »
Length:911
Mass (Da):97,766
Checksum:iD5D1428778212A8A
GO

Sequence cautioni

The sequence AAC71052 differs from that shown. Reason: Frameshift at positions 73 and 87.Curated
The sequence BAC36863 differs from that shown. Reason: Frameshift at position 491.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti796G → C in AAC71052 (PubMed:10337617).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0134061M → MALYHHHFITRRRR in isoform 2 and isoform 3. 4 Publications1
Alternative sequenceiVSP_013407689 – 703QFYSN…NAGGG → DFFTDCYGYHDFGAS in isoform 2. 2 PublicationsAdd BLAST15
Alternative sequenceiVSP_013408704 – 898Missing in isoform 2. 2 PublicationsAdd BLAST195

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF506968 Genomic DNA. Translation: AAM34210.1.
AF098967 mRNA. Translation: AAC71052.1. Frameshift.
AF497751 mRNA. Translation: AAO23054.1.
AF497752 mRNA. Translation: AAO23055.1.
AK048096 mRNA. Translation: BAC33239.1.
AK077560 mRNA. Translation: BAC36863.1. Frameshift.
AK088604 mRNA. Translation: BAC40448.1.
BC047272 mRNA. Translation: AAH47272.1.
CCDSiCCDS40552.1. [Q9Z1X4-1]
RefSeqiNP_001036172.1. NM_001042707.2. [Q9Z1X4-1]
NP_001036173.1. NM_001042708.2. [Q9Z1X4-2]
NP_001264250.1. NM_001277321.1.
NP_001264251.1. NM_001277322.1. [Q9Z1X4-3]
NP_034691.2. NM_010561.3. [Q9Z1X4-3]
XP_006510094.1. XM_006510031.2. [Q9Z1X4-1]
UniGeneiMm.440026.

Genome annotation databases

EnsembliENSMUST00000067646; ENSMUSP00000065770; ENSMUSG00000032178. [Q9Z1X4-1]
GeneIDi16201.
KEGGimmu:16201.
UCSCiuc009old.2. mouse. [Q9Z1X4-3]
uc009ole.2. mouse. [Q9Z1X4-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF506968 Genomic DNA. Translation: AAM34210.1.
AF098967 mRNA. Translation: AAC71052.1. Frameshift.
AF497751 mRNA. Translation: AAO23054.1.
AF497752 mRNA. Translation: AAO23055.1.
AK048096 mRNA. Translation: BAC33239.1.
AK077560 mRNA. Translation: BAC36863.1. Frameshift.
AK088604 mRNA. Translation: BAC40448.1.
BC047272 mRNA. Translation: AAH47272.1.
CCDSiCCDS40552.1. [Q9Z1X4-1]
RefSeqiNP_001036172.1. NM_001042707.2. [Q9Z1X4-1]
NP_001036173.1. NM_001042708.2. [Q9Z1X4-2]
NP_001264250.1. NM_001277321.1.
NP_001264251.1. NM_001277322.1. [Q9Z1X4-3]
NP_034691.2. NM_010561.3. [Q9Z1X4-3]
XP_006510094.1. XM_006510031.2. [Q9Z1X4-1]
UniGeneiMm.440026.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4AT7X-ray1.90B1-381[»]
4AT8X-ray2.69B/D1-381[»]
4AT9X-ray2.80B1-381[»]
4ATBX-ray3.10B/D1-381[»]
5DV7X-ray3.50C4-701[»]
ProteinModelPortaliQ9Z1X4.
SMRiQ9Z1X4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi200648. 5 interactors.
IntActiQ9Z1X4. 3 interactors.
MINTiMINT-4098601.
STRINGi10090.ENSMUSP00000065770.

PTM databases

iPTMnetiQ9Z1X4.
PhosphoSitePlusiQ9Z1X4.

Proteomic databases

EPDiQ9Z1X4.
PaxDbiQ9Z1X4.
PeptideAtlasiQ9Z1X4.
PRIDEiQ9Z1X4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000067646; ENSMUSP00000065770; ENSMUSG00000032178. [Q9Z1X4-1]
GeneIDi16201.
KEGGimmu:16201.
UCSCiuc009old.2. mouse. [Q9Z1X4-3]
uc009ole.2. mouse. [Q9Z1X4-1]

Organism-specific databases

CTDi3609.
MGIiMGI:1339973. Ilf3.

Phylogenomic databases

eggNOGiKOG3792. Eukaryota.
ENOG410XPBY. LUCA.
GeneTreeiENSGT00550000074528.
HOGENOMiHOG000232164.
HOVERGENiHBG069915.
InParanoidiQ9Z1X4.
KOiK13090.
OMAiQSQYSNY.
OrthoDBiEOG091G022L.
PhylomeDBiQ9Z1X4.
TreeFamiTF320194.

Miscellaneous databases

PROiQ9Z1X4.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000032178.
CleanExiMM_ILF3.
ExpressionAtlasiQ9Z1X4. baseline and differential.
GenevisibleiQ9Z1X4. MM.

Family and domain databases

Gene3Di3.30.160.20. 2 hits.
InterProiIPR014720. dsRBD_dom.
IPR006561. DZF_dom.
IPR033099. ILF3/NF90.
[Graphical view]
PANTHERiPTHR10910:SF34. PTHR10910:SF34. 2 hits.
PfamiPF00035. dsrm. 2 hits.
PF07528. DZF. 1 hit.
[Graphical view]
SMARTiSM00358. DSRM. 2 hits.
SM00572. DZF. 1 hit.
[Graphical view]
PROSITEiPS50137. DS_RBD. 2 hits.
PS51703. DZF. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiILF3_MOUSE
AccessioniPrimary (citable) accession number: Q9Z1X4
Secondary accession number(s): Q80VD5
, Q812A1, Q8BP80, Q8C2H8, Q8K588
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 31, 2002
Last sequence update: April 12, 2005
Last modified: November 2, 2016
This is version 141 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.