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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)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 898898Interleukin enhancer-binding factor 3PRO_0000126071Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei67 – 671PhosphothreonineCombined sources
Modified residuei100 – 1001N6-acetyllysineBy similarity
Modified residuei188 – 1881Phosphothreonine; by PKR1 Publication
Modified residuei190 – 1901PhosphoserineCombined sources
Modified residuei315 – 3151Phosphothreonine; by PKR1 Publication
Cross-linki348 – 348Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO1)By similarity
Modified residuei382 – 3821PhosphoserineBy similarity
Modified residuei384 – 3841PhosphoserineBy similarity
Modified residuei460 – 4601N6-acetyllysineBy similarity
Modified residuei476 – 4761PhosphoserineBy similarity
Modified residuei477 – 4771PhosphoserineBy similarity
Modified residuei482 – 4821PhosphoserineCombined sources
Modified residuei486 – 4861PhosphoserineCombined sources
Modified residuei592 – 5921PhosphothreonineBy similarity
Modified residuei609 – 6091Omega-N-methylated arginineBy similarity
Modified residuei794 – 7941PhosphoserineBy similarity
Modified residuei812 – 8121PhosphoserineBy similarity
Modified residuei814 – 8141PhosphoserineBy similarity
Modified residuei818 – 8181PhosphoserineBy similarity

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.
MaxQBiQ9Z1X4.
PaxDbiQ9Z1X4.
PeptideAtlasiQ9Z1X4.
PRIDEiQ9Z1X4.

PTM databases

iPTMnetiQ9Z1X4.
PhosphoSiteiQ9Z1X4.

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 interactions.
IntActiQ9Z1X4. 3 interactions.
MINTiMINT-4098601.
STRINGi10090.ENSMUSP00000065770.

Structurei

Secondary structure

1
898
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi8 – 2114Combined sources
Helixi25 – 5329Combined sources
Beta strandi89 – 946Combined sources
Helixi96 – 1005Combined sources
Beta strandi109 – 11810Combined sources
Helixi122 – 13615Combined sources
Turni137 – 1393Combined sources
Beta strandi145 – 1495Combined sources
Turni150 – 1534Combined sources
Beta strandi154 – 1585Combined sources
Beta strandi160 – 1634Combined sources
Beta strandi166 – 1727Combined sources
Helixi174 – 18411Combined sources
Helixi200 – 21920Combined sources
Turni220 – 2223Combined sources
Helixi226 – 23914Combined sources
Helixi241 – 2466Combined sources
Helixi249 – 26012Combined sources
Beta strandi262 – 2643Combined sources
Helixi268 – 28013Combined sources
Turni281 – 2844Combined sources
Beta strandi285 – 2884Combined sources
Turni302 – 3054Combined sources
Helixi308 – 32619Combined sources
Helixi330 – 3334Combined sources
Beta strandi363 – 3653Combined sources
Helixi405 – 4128Combined sources
Beta strandi419 – 4257Combined sources
Beta strandi427 – 4293Combined sources
Beta strandi431 – 4388Combined sources
Beta strandi441 – 4499Combined sources
Helixi450 – 46516Combined sources
Turni523 – 5253Combined sources
Helixi528 – 5358Combined sources
Beta strandi542 – 5476Combined sources
Beta strandi549 – 5513Combined sources
Beta strandi554 – 5618Combined sources
Beta strandi564 – 5729Combined sources
Helixi573 – 58816Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
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. Positions 6-374, 399-594.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini5 – 378374DZFPROSITE-ProRule annotationAdd
BLAST
Domaini398 – 46770DRBM 1PROSITE-ProRule annotationAdd
BLAST
Domaini524 – 59067DRBM 2PROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni609 – 898290Interaction with PRMT1By similarityAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi371 – 38919Bipartite nuclear localization signalSequence analysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi385 – 3895Poly-Lys
Compositional biasi634 – 6374Poly-Pro
Compositional biasi640 – 65920Arg/Gly-richAdd
BLAST
Compositional biasi701 – 71010Poly-Gly
Compositional biasi796 – 8005Poly-Gly

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)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti796 – 7961G → C in AAC71052 (PubMed:10337617).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 11M → MALYHHHFITRRRR in isoform 2 and isoform 3. 4 PublicationsVSP_013406
Alternative sequencei689 – 70315QFYSN…NAGGG → DFFTDCYGYHDFGAS in isoform 2. 2 PublicationsVSP_013407Add
BLAST
Alternative sequencei704 – 898195Missing in isoform 2. 2 PublicationsVSP_013408Add
BLAST

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_006510031.1. [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_006510031.1. [Q9Z1X4-1]
UniGeneiMm.440026.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
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. Positions 6-374, 399-594.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

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

PTM databases

iPTMnetiQ9Z1X4.
PhosphoSiteiQ9Z1X4.

Proteomic databases

EPDiQ9Z1X4.
MaxQBiQ9Z1X4.
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: September 7, 2016
This is version 139 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.