UniProtKB - Q91550 (ILF3A_XENLA)
Protein
Interleukin enhancer-binding factor 3-A
Gene
ilf3-a
Organism
Xenopus laevis (African clawed frog)
Status
Functioni
RNA-binding protein that plays an essential role in the biogenesis of circular RNAs (circRNAs) which are produced by back-splicing circularization of pre-mRNAs. Within the nucleus, promotes circRNAs processing by stabilizing the regulatory elements residing in the flanking introns of the circularized exons (By similarity). Plays thereby a role in the back-splicing of a subset of circRNAs (By similarity). As a consequence, participates in a wide range of transcriptional and post-transcriptional processes (By similarity). Binds to poly-U elements and AU-rich elements (AREs) in the 3'-UTR of target mRNAs (By similarity). Upon viral infection, ILF3 accumulates in the cytoplasm and participates in the innate antiviral response (By similarity). Mechanistically, ILF3 becomes phosphorylated and activated by the double-stranded RNA-activated protein kinase/PKR which releases ILF3 from cellular mature circRNAs. In turn, unbound ILF3 molecules are able to interact with and thus inhibit viral mRNAs (By similarity). Has a cytoplasmic role early in development as part of a ribonucleoprotein (mRNP) complex which may regulate mRNA transport and/or translation. Following nuclear localization at the mid-blastula transition, acts as a transcription factor and binds the 5'-CCAAT-3' promoter sequence to regulate transcription of the gata2 gene as a subunit of the CCAAT box transcription factor (CBTF). Its role as an mRNP component negatively regulates its activity as a transcription factor by precluding its nuclear localization (PubMed:10899122, PubMed:15452137, PubMed:18636753, PubMed:19665599, PubMed:7922339, PubMed:9710639).By similarity6 Publications
GO - Molecular functioni
- double-stranded RNA binding Source: UniProtKB
- mRNA 3'-UTR AU-rich region binding Source: GO_Central
- mRNA 5'-UTR binding Source: UniProtKB
- sequence-specific DNA binding Source: UniProtKB
- transcription regulatory region sequence-specific DNA binding Source: UniProtKB
GO - Biological processi
- defense response to virus Source: UniProtKB-KW
- multicellular organism development Source: UniProtKB-KW
- regulation of transcription, DNA-templated Source: UniProtKB
- regulation of transcription by RNA polymerase II Source: UniProtKB
Keywordsi
Molecular function | Developmental protein, DNA-binding, RNA-binding |
Biological process | Antiviral defense, Transcription, Transcription regulation |
Names & Taxonomyi
Protein namesi | Recommended name: Interleukin enhancer-binding factor 3-AAlternative name(s): CCAAT box transcription factor subunit1 Publication Double-stranded RNA-binding protein 4F.11 Publication Short name: DsRNA-binding protein 4F.1Imported |
Gene namesi | Name:ilf3-a Synonyms:ilf3, ubp31 Publication |
Organismi | Xenopus laevis (African clawed frog) |
Taxonomic identifieri | 8355 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Amphibia › Batrachia › Anura › Pipoidea › Pipidae › Xenopodinae › Xenopus › Xenopus |
Organism-specific databases
Xenbasei | XB-GENE-494371, ilf3.S |
Subcellular locationi
Nucleus
- Nucleus 2 Publications
Cytoplasm and Cytosol
- Cytoplasm 2 Publications
Note: Cytoplasmic in fertilized eggs, then translocates to the nucleus prior to gastrulation. RNA-binding is required for cytoplasmic retention during early development, and nuclear translocation at the mid-blastula transition (MBT) is probably coupled to the degradation of maternal mRNA that occurs at that stage.2 Publications
Nucleus
- nucleus Source: UniProtKB
Other locations
- cytoplasm Source: UniProtKB
- ribonucleoprotein complex Source: UniProtKB
Keywords - Cellular componenti
Cytoplasm, NucleusPathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 433 | F → A: Abolishes mRNA-binding and cytoplasmic retention, localizing predominantly to the nucleus from early development. Also disrupts DNA-binding; when associated with A-552. 2 Publications | 1 | |
Mutagenesisi | 552 | F → A: Abolishes mRNA-binding and cytoplasmic retention, localizing predominantly to the nucleus from early development. Also disrupts DNA-binding; when associated with A-433. 2 Publications | 1 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000391689 | 1 – 897 | Interleukin enhancer-binding factor 3-AAdd BLAST | 897 |
Post-translational modificationi
Phosphorylated. Phosphorylation affects nuclear translocation.2 Publications
Methylated by protein arginine N-methyltransferase 1 (prmt1b) in the RGG-rich domain. Methylation decreases DNA-binding and thereby decreases transcription of the gata2 gene, but does not regulate dsRNA binding or subcellular localization.1 Publication
Keywords - PTMi
Methylation, PhosphoproteinExpressioni
Tissue specificityi
Expressed mainly in the ectoderm (at protein level).1 Publication
Developmental stagei
Expressed both maternally and zygotically throughout early development (at protein level). Isoform 1 accumulates throughout oogenesis but isoform 2 is translationally masked until oocyte maturation.2 Publications
Interactioni
Subunit structurei
A component of a ybx2/frgy2-containing mRNA-ribonucleoprotein (mRNP) complex. Also a component of the CCAAT box transcription factor (CBTF) complex.
3 PublicationsProtein-protein interaction databases
IntActi | Q91550, 1 interactor |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 5 – 379 | DZFPROSITE-ProRule annotationAdd BLAST | 375 | |
Domaini | 399 – 468 | DRBM 1PROSITE-ProRule annotationAdd BLAST | 70 | |
Domaini | 521 – 587 | DRBM 2PROSITE-ProRule annotationAdd BLAST | 67 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 372 – 390 | Bipartite nuclear localization signalSequence analysisAdd BLAST | 19 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 382 – 397 | Lys-richSequence analysisAdd BLAST | 16 | |
Compositional biasi | 606 – 701 | Arg/Gly-richSequence analysisAdd BLAST | 96 | |
Compositional biasi | 714 – 747 | Pro-richSequence analysisAdd BLAST | 34 | |
Compositional biasi | 729 – 776 | Gln-richSequence analysisAdd BLAST | 48 |
Keywords - Domaini
RepeatPhylogenomic databases
OMAi | YSHGQGN |
Family and domain databases
Gene3Di | 3.30.460.10, 1 hit |
InterProi | View protein in InterPro IPR014720, dsRBD_dom IPR006561, DZF_dom IPR033099, ILF3/NF90 IPR043519, NT_sf |
PANTHERi | PTHR45762:SF4, PTHR45762:SF4, 3 hits |
Pfami | View protein in Pfam PF00035, dsrm, 2 hits PF07528, DZF, 1 hit |
SMARTi | View protein in SMART SM00358, DSRM, 2 hits SM00572, DZF, 1 hit |
PROSITEi | View protein in PROSITE PS50137, DS_RBD, 2 hits PS51703, DZF, 1 hit |
s (2)i Sequence
Sequence statusi: Complete.
This entry describes 2 produced by isoformsialternative splicing. AlignAdd to basketIsoform 11 Publication (identifier: Q91550-1) [UniParc]FASTAAdd to basket
Also known as: CBTF1221 Publication, p1221 Publication
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MRPMRIFLND DRHVMAKHSV VYPTQEELEA VQNMVSHTER ALKAVSDWID
60 70 80 90 100
QQEKDCSGEQ EQPMAEETET TEEGKDSEMK TGENPTRTLR GVMRVGLVAK
110 120 130 140 150
GLLLKGDLDL ELVLLCRDKP TISLLKRVAD NLVLQFETVS EDKYEVIQNI
160 170 180 190 200
REALIVVKST KEPPLTLNIR LTSPLVREEM EKLSAGETLT VSDPPDVLDR
210 220 230 240 250
HKCLAALASL RHAKWFQARA NGLKSCVIVI RVLRDLCTRV PTWEPLRGWP
260 270 280 290 300
LELLCEKAIG TANRPMGAGE ALRRVLECLS SGILMPDGSG LYDPCEKDAS
310 320 330 340 350
DALEHLERQQ REDITQSAQH ALRLAAFGQL HKVLGMDPLP SKMPKKTKVE
360 370 380 390 400
TPVIDYTVQI PPSTTYAMPP LKRPIEEDGD DKSPSKKKKK IQKKDEKSEP
410 420 430 440 450
PQVMNALMRL NQLKPGLQYK LISQTGPVHA PVFTMSVEVD DKTFEASGPS
460 470 480 490 500
KKTAKLHVAV KVLQDMGLPT GMEEKEEGTD ESEQKPVVQT PAQPDDSAEV
510 520 530 540 550
DSAALDQAES AKQQGPILTK HGKNPVMELN EKRRGLKYEL ISETGGSHDK
560 570 580 590 600
RFVMEVEVDG VKFQGSGSNK KVAKAYAALS ALEKLFPDYT MYTEAPKKKR
610 620 630 640 650
PPMMPRGGPK FAGKHNQGFG MMYSEVPPPQ AMRGRGRGGM NRGRGRGRGG
660 670 680 690 700
FGGGYMNSGG YGGGYGGNYN YQTSATAGYS QFYSNGGASG NAGGGGAGTG
710 720 730 740 750
GYSSYYQGDS YSAPTPPKPF VNKKPPPPQQ QQQQQPPPQH ASNPPKPSYN
760 770 780 790 800
QGYQGHQGGQ QQQQQQQQQQ TYNQNQYSNY GPPQKQKGGY NQGAQGAGSG
810 820 830 840 850
GSYNYSNSYT GGTAPLGTAV ERVQEGEAAA LTQRQALVTT QAHTPAMVEP
860 870 880 890
AVLRRTKVTR SLITIKVPPD RTTVALQIIT SSLREELGVT AGIQNTT
Sequence cautioni
The sequence AAG22859 differs from that shown. Reason: Frameshift.Curated
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 157 | V → I in AAG22859 (PubMed:10899122).Curated | 1 | |
Sequence conflicti | 540 | L → M in AAA19960 (PubMed:7922339).Curated | 1 |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_053194 | 681 – 695 | QFYSN…NAGGG → DFFTDCYGYHDFASA in isoform 2. 1 PublicationAdd BLAST | 15 | |
Alternative sequenceiVSP_053195 | 696 – 897 | Missing in isoform 2. 1 PublicationAdd BLAST | 202 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U07155 mRNA Translation: AAA19960.1 AY008299 mRNA Translation: AAG22859.1 Frameshift. |
PIRi | I51652 |
RefSeqi | XP_018094990.1, XM_018239501.1 [Q91550-2] XP_018094991.1, XM_018239502.1 [Q91550-2] |
Genome annotation databases
GeneIDi | 399197 |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U07155 mRNA Translation: AAA19960.1 AY008299 mRNA Translation: AAG22859.1 Frameshift. |
PIRi | I51652 |
RefSeqi | XP_018094990.1, XM_018239501.1 [Q91550-2] XP_018094991.1, XM_018239502.1 [Q91550-2] |
3D structure databases
SMRi | Q91550 |
ModBasei | Search... |
Protein-protein interaction databases
IntActi | Q91550, 1 interactor |
Genome annotation databases
GeneIDi | 399197 |
Organism-specific databases
CTDi | 399197 |
Xenbasei | XB-GENE-494371, ilf3.S |
Phylogenomic databases
OMAi | YSHGQGN |
Family and domain databases
Gene3Di | 3.30.460.10, 1 hit |
InterProi | View protein in InterPro IPR014720, dsRBD_dom IPR006561, DZF_dom IPR033099, ILF3/NF90 IPR043519, NT_sf |
PANTHERi | PTHR45762:SF4, PTHR45762:SF4, 3 hits |
Pfami | View protein in Pfam PF00035, dsrm, 2 hits PF07528, DZF, 1 hit |
SMARTi | View protein in SMART SM00358, DSRM, 2 hits SM00572, DZF, 1 hit |
PROSITEi | View protein in PROSITE PS50137, DS_RBD, 2 hits PS51703, DZF, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | ILF3A_XENLA | |
Accessioni | Q91550Primary (citable) accession number: Q91550 Secondary accession number(s): Q9DEU4 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | March 2, 2010 |
Last sequence update: | March 2, 2010 | |
Last modified: | April 7, 2021 | |
This is version 91 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program |