Human Gene ILF2 (ENST00000361891.9) Description and Page Index
  Description: Homo sapiens interleukin enhancer binding factor 2 (ILF2), transcript variant 1, mRNA. (from RefSeq NM_004515)
RefSeq Summary (NM_004515): The protein encoded by this gene is a transcription factor required for T-cell expression of the interleukin 2 gene. It also binds RNA and is an essential component for encapsidation and protein priming of hepatitis B viral polymerase. The encoded 45 kDa protein (NF45, ILF2) forms a complex with the 90 kDa interleukin enhancer-binding factor 3 (NF90, ILF3), and this complex has been shown to affect the redistribution of nuclear mRNA to the cytoplasm, to repair DNA breaks by nonhomologous end joining, and to negatively regulate the microRNA processing pathway. Knockdown of NF45 or NF90 protein retards cell growth, possibly by inhibition of mRNA stabilization. Alternative splicing results in multiple transcript variants. Related pseudogenes have been found on chromosomes 3 and 14. [provided by RefSeq, Dec 2014].
Gencode Transcript: ENST00000361891.9
Gencode Gene: ENSG00000143621.17
Transcript (Including UTRs)
   Position: hg38 chr1:153,661,788-153,670,993 Size: 9,206 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg38 chr1:153,662,396-153,670,922 Size: 8,527 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsCTDRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathways
Other NamesMethods
Data last updated: 2019-09-04

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:153,661,788-153,670,993)mRNA (may differ from genome)Protein (390 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
HGNCHPRDLynxMGIneXtProtOMIM
PubMedReactomeStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: ILF2_HUMAN
DESCRIPTION: RecName: Full=Interleukin enhancer-binding factor 2; AltName: Full=Nuclear factor of activated T-cells 45 kDa;
FUNCTION: Appears to function predominantly as a heterodimeric complex with ILF3. This complex may regulate transcription of the IL2 gene during T-cell activation. It can also promote the formation of stable DNA-dependent protein kinase holoenzyme complexes on DNA.
SUBUNIT: Forms heterodimers with ILF3. ILF2-ILF3 heterodimers may 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 complex with ILF3, YLPM1, KHDRBS1, RBMX, NCOA5 and PPP1CA. 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 IGF2BP1.
SUBCELLULAR LOCATION: Nucleus, nucleolus. Cytoplasm. Note=Localized in cytoplasmic mRNP granules containing untranslated mRNAs.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR.
SIMILARITY: Contains 1 DZF domain.
SEQUENCE CAUTION: Sequence=AAA20993.1; Type=Frameshift; Positions=376; Sequence=AAF29591.1; Type=Miscellaneous discrepancy; Note=Chimeric cDNA; Sequence=CAI13611.1; Type=Erroneous gene model prediction;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 107.29 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 2289.24 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -17.8071-0.251 Picture PostScript Text
3' UTR -140.20608-0.231 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR006116 - 2-5-oligoadenylate_synth_N
IPR006561 - DZF

Pfam Domains:
PF07528 - DZF domain

ModBase Predicted Comparative 3D Structure on Q12905
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologGenome BrowserNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsemblEnsembl  
Protein SequenceProtein Sequence Protein Sequence  
AlignmentAlignment Alignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0003723 RNA binding
GO:0003725 double-stranded RNA binding
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016740 transferase activity

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006955 immune response
GO:0043312 neutrophil degranulation
GO:0045893 positive regulation of transcription, DNA-templated

Cellular Component:
GO:0005576 extracellular region
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0016020 membrane
GO:0035580 specific granule lumen
GO:1904724 tertiary granule lumen
GO:1904813 ficolin-1-rich granule lumen
GO:1990904 ribonucleoprotein complex


-  Descriptions from all associated GenBank mRNAs
  LF206200 - JP 2014500723-A/13703: Polycomb-Associated Non-Coding RNAs.
MA441777 - JP 2018138019-A/13703: Polycomb-Associated Non-Coding RNAs.
LF352381 - JP 2014500723-A/159884: Polycomb-Associated Non-Coding RNAs.
MA587958 - JP 2018138019-A/159884: Polycomb-Associated Non-Coding RNAs.
AK223326 - Homo sapiens mRNA for interleukin enhancer binding factor 2 variant, clone: TMS08247.
AF113702 - Homo sapiens clone FLC1353 PRO3063 mRNA, complete cds.
BC000382 - Homo sapiens interleukin enhancer binding factor 2, 45kDa, mRNA (cDNA clone MGC:8391 IMAGE:2820505), complete cds.
U10323 - Human nuclear factor NF45 mRNA, complete cds.
JD524312 - Sequence 505336 from Patent EP1572962.
JD418115 - Sequence 399139 from Patent EP1572962.
JD341103 - Sequence 322127 from Patent EP1572962.
JD221259 - Sequence 202283 from Patent EP1572962.
AK302214 - Homo sapiens cDNA FLJ51660 complete cds, highly similar to Interleukin enhancer-binding factor 2.
JD423417 - Sequence 404441 from Patent EP1572962.
JD229879 - Sequence 210903 from Patent EP1572962.
HQ322261 - Homo sapiens cell-line A549 NF45 mRNA, complete cds.
HQ322262 - Homo sapiens cell-line BEAS-2B NF45 mRNA, complete cds.
AK313364 - Homo sapiens cDNA, FLJ93892, Homo sapiens interleukin enhancer binding factor 2, 45kDa (ILF2),mRNA.
KJ891471 - Synthetic construct Homo sapiens clone ccsbBroadEn_00865 ILF2 gene, encodes complete protein.
DQ891378 - Synthetic construct clone IMAGE:100004008; FLH176356.01X; RZPDo839C05122D interleukin enhancer binding factor 2, 45kDa (ILF2) gene, encodes complete protein.
DQ894555 - Synthetic construct Homo sapiens clone IMAGE:100009015; FLH176352.01L; RZPDo839C05121D interleukin enhancer binding factor 2, 45kDa (ILF2) gene, encodes complete protein.
AB528994 - Synthetic construct DNA, clone: pF1KE0931, Homo sapiens ILF2 gene for interleukin enhancer binding factor 2, 45kDa, without stop codon, in Flexi system.
AK310615 - Homo sapiens cDNA, FLJ17657.
JD023386 - Sequence 4410 from Patent EP1572962.
JD036000 - Sequence 17024 from Patent EP1572962.
JD026450 - Sequence 7474 from Patent EP1572962.
JD033616 - Sequence 14640 from Patent EP1572962.
JD033615 - Sequence 14639 from Patent EP1572962.
JD023440 - Sequence 4464 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q12905 (Reactome details) participates in the following event(s):

R-HSA-6798749 Exocytosis of specific granule lumen proteins
R-HSA-6798745 Exocytosis of tertiary granule lumen proteins
R-HSA-6800434 Exocytosis of ficolin-rich granule lumen proteins
R-HSA-6798695 Neutrophil degranulation
R-HSA-168249 Innate Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: A6NDB0, B2R8G7, ILF2_HUMAN, NF45, NM_004515, PRO3063, Q12905, Q5SR10, Q5SR11, Q7L7R3, Q9BWD4, Q9P1N0, uc001fcr.1, uc001fcr.2, uc001fcr.3, uc001fcr.4, uc001fcr.5, uc001fcr.6
UCSC ID: uc001fcr.6
RefSeq Accession: NM_004515
Protein: Q12905 (aka ILF2_HUMAN)
CCDS: CCDS1050.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.