Aliases for EIF3F Gene

Aliases for EIF3F Gene

  • Eukaryotic Translation Initiation Factor 3 Subunit F 2 3 4 5
  • Eukaryotic Translation Initiation Factor 3, Subunit 5 Epsilon, 47kDa 2 3
  • Deubiquitinating Enzyme EIF3f 3 4
  • EIF-3-Epsilon 3 4
  • EIF3-Epsilon 2 3
  • EIF3-P47 2 3
  • EIF3S5 3 4
  • Eukaryotic Translation Initiation Factor 3, Subunit 5 (Epsilon, 47kD) 3
  • Eukaryotic Translation Initiation Factor 3, Subunit F 2
  • Eukaryotic Translation Initiation Factor 3 Subunit 5 4
  • EC 3.4.19.12 4
  • EIF3 P47 4
  • MRT67 3
  • EIF3F 5
  • EIF3f 4

External Ids for EIF3F Gene

Previous HGNC Symbols for EIF3F Gene

  • EIF3S5

Previous GeneCards Identifiers for EIF3F Gene

  • GC11P007675

Summaries for EIF3F Gene

GeneCards Summary for EIF3F Gene

EIF3F (Eukaryotic Translation Initiation Factor 3 Subunit F) is a Protein Coding gene. Diseases associated with EIF3F include Intellectual Developmental Disorder, Autosomal Recessive 67. Among its related pathways are Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S and Viral mRNA Translation. Gene Ontology (GO) annotations related to this gene include thiol-dependent ubiquitin-specific protease activity and translation initiation factor binding. An important paralog of this gene is PSMD7.

UniProtKB/Swiss-Prot Summary for EIF3F Gene

  • Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is required for several steps in the initiation of protein synthesis (PubMed:17581632, PubMed:25849773, PubMed:27462815). The eIF-3 complex associates with the 40S ribosome and facilitates the recruitment of eIF-1, eIF-1A, eIF-2:GTP:methionyl-tRNAi and eIF-5 to form the 43S pre-initiation complex (43S PIC). The eIF-3 complex stimulates mRNA recruitment to the 43S PIC and scanning of the mRNA for AUG recognition. The eIF-3 complex is also required for disassembly and recycling of post-termination ribosomal complexes and subsequently prevents premature joining of the 40S and 60S ribosomal subunits prior to initiation (PubMed:17581632). The eIF-3 complex specifically targets and initiates translation of a subset of mRNAs involved in cell proliferation, including cell cycling, differentiation and apoptosis, and uses different modes of RNA stem-loop binding to exert either translational activation or repression (PubMed:25849773).
  • Deubiquitinates activated NOTCH1, promoting its nuclear import, thereby acting as a positive regulator of Notch signaling.

Gene Wiki entry for EIF3F Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for EIF3F Gene

Genomics for EIF3F Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for EIF3F Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around EIF3F on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for EIF3F

Top Transcription factor binding sites by QIAGEN in the EIF3F gene promoter:
  • AML1a
  • Arnt
  • ATF
  • Bach2
  • c-Myc
  • GR
  • GR-alpha
  • Max
  • NRSF form 1
  • NRSF form 2

Genomic Locations for EIF3F Gene

Genomic Locations for EIF3F Gene
chr11:7,970,251-8,001,862
(GRCh38/hg38)
Size:
31,612 bases
Orientation:
Plus strand
chr11:7,991,798-8,023,409
(GRCh37/hg19)
Size:
31,612 bases
Orientation:
Plus strand

Genomic View for EIF3F Gene

Genes around EIF3F on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
EIF3F Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for EIF3F Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for EIF3F Gene

Proteins for EIF3F Gene

  • Protein details for EIF3F Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00303-EIF3F_HUMAN
    Recommended name:
    Eukaryotic translation initiation factor 3 subunit F
    Protein Accession:
    O00303
    Secondary Accessions:
    • A8K0S2
    • Q6IB45
    • Q8N978

    Protein attributes for EIF3F Gene

    Size:
    357 amino acids
    Molecular mass:
    37564 Da
    Quaternary structure:
    • Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is composed of 13 subunits: EIF3A, EIF3B, EIF3C, EIF3D, EIF3E, EIF3F, EIF3G, EIF3H, EIF3I, EIF3J, EIF3K, EIF3L and EIF3M. The eIF-3 complex appears to include 3 stable modules: module A is composed of EIF3A, EIF3B, EIF3G and EIF3I; module B is composed of EIF3F, EIF3H, and EIF3M; and module C is composed of EIF3C, EIF3D, EIF3E, EIF3K and EIF3L. EIF3C of module C binds EIF3B of module A and EIF3H of module B, thereby linking the three modules. EIF3J is a labile subunit that binds to the eIF-3 complex via EIF3B. The eIF-3 complex interacts with RPS6KB1 under conditions of nutrient depletion. Mitogenic stimulation leads to binding and activation of a complex composed of MTOR and RPTOR, leading to phosphorylation and release of RPS6KB1 and binding of EIF4B to eIF-3. Interacts with RNF139; the interaction leads to protein translation inhibitions in a ubiquitination-dependent manner. Interacts with DTX1, the interaction is required for deubiquitinating activity towards NOTCH1.

    Three dimensional structures from OCA and Proteopedia for EIF3F Gene

neXtProt entry for EIF3F Gene

Post-translational modifications for EIF3F Gene

  • Phosphorylation is enhanced upon serum stimulation. Phosphorylated during apoptosis by caspase-processed CDK11.
  • Ubiquitination at Lys162, Lys214, and Lys238
  • Modification sites at PhosphoSitePlus

Other Protein References for EIF3F Gene

No data available for DME Specific Peptides for EIF3F Gene

Domains & Families for EIF3F Gene

Gene Families for EIF3F Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for EIF3F Gene

InterPro:
Blocks:
  • Mov34 family
ProtoNet:

Suggested Antigen Peptide Sequences for EIF3F Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ36192 fis, clone TESTI2027450, highly similar to Eukaryotic translation initiation factor 3 subunit 5 (B3KSH1_HUMAN)
  • cDNA FLJ52696, highly similar to Eukaryotic translation initiation factor 3 subunit 5 (B4DMT5_HUMAN)
  • eIF3 p47 (EIF3F_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O00303

UniProtKB/Swiss-Prot:

EIF3F_HUMAN :
  • The MPN domain mediates deubiquitinating activity.
  • Belongs to the eIF-3 subunit F family.
Domain:
  • The MPN domain mediates deubiquitinating activity.
Family:
  • Belongs to the eIF-3 subunit F family.
genes like me logo Genes that share domains with EIF3F: view

Function for EIF3F Gene

Molecular function for EIF3F Gene

UniProtKB/Swiss-Prot Function:
Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is required for several steps in the initiation of protein synthesis (PubMed:17581632, PubMed:25849773, PubMed:27462815). The eIF-3 complex associates with the 40S ribosome and facilitates the recruitment of eIF-1, eIF-1A, eIF-2:GTP:methionyl-tRNAi and eIF-5 to form the 43S pre-initiation complex (43S PIC). The eIF-3 complex stimulates mRNA recruitment to the 43S PIC and scanning of the mRNA for AUG recognition. The eIF-3 complex is also required for disassembly and recycling of post-termination ribosomal complexes and subsequently prevents premature joining of the 40S and 60S ribosomal subunits prior to initiation (PubMed:17581632). The eIF-3 complex specifically targets and initiates translation of a subset of mRNAs involved in cell proliferation, including cell cycling, differentiation and apoptosis, and uses different modes of RNA stem-loop binding to exert either translational activation or repression (PubMed:25849773).
UniProtKB/Swiss-Prot Function:
Deubiquitinates activated NOTCH1, promoting its nuclear import, thereby acting as a positive regulator of Notch signaling.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).; EC=3.4.19.12; Evidence={ECO:0000269|PubMed:21124883};.

Enzyme Numbers (IUBMB) for EIF3F Gene

Phenotypes From GWAS Catalog for EIF3F Gene

Gene Ontology (GO) - Molecular Function for EIF3F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003743 translation initiation factor activity IEA,TAS 9341143
GO:0004843 thiol-dependent ubiquitin-specific protease activity IDA 21124883
GO:0005515 protein binding IPI 16169070
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase activity IEA --
genes like me logo Genes that share ontologies with EIF3F: view
genes like me logo Genes that share phenotypes with EIF3F: view

Human Phenotype Ontology for EIF3F Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for EIF3F

No data available for Animal Models , Transcription Factor Targets and HOMER Transcription for EIF3F Gene

Localization for EIF3F Gene

Subcellular locations from UniProtKB/Swiss-Prot for EIF3F Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for EIF3F gene
Compartment Confidence
cytosol 4
mitochondrion 3
cytoskeleton 2
nucleus 2
plasma membrane 1
extracellular 1
endoplasmic reticulum 1
endosome 1
lysosome 1
golgi apparatus 1
peroxisome 0

Gene Ontology (GO) - Cellular Components for EIF3F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
GO:0005852 eukaryotic translation initiation factor 3 complex IEA,TAS 9341143
GO:0016020 membrane HDA 19946888
GO:0016282 eukaryotic 43S preinitiation complex IEA --
genes like me logo Genes that share ontologies with EIF3F: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for EIF3F Gene

Pathways & Interactions for EIF3F Gene

genes like me logo Genes that share pathways with EIF3F: view

SIGNOR curated interactions for EIF3F Gene

Activates:
Is inactivated by:
Other effect:

Gene Ontology (GO) - Biological Process for EIF3F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001732 formation of cytoplasmic translation initiation complex IEA --
GO:0002183 cytoplasmic translational initiation IEA --
GO:0006412 translation IEA --
GO:0006413 translational initiation IEA,TAS --
GO:0006508 proteolysis IEA --
genes like me logo Genes that share ontologies with EIF3F: view

Drugs & Compounds for EIF3F Gene

(1) Drugs for EIF3F Gene - From: DrugBank

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Quercetin Experimental, Investigational Pharma Target Antitumor agent, Non-selective PI 3-kinase inhibitor 54
genes like me logo Genes that share compounds with EIF3F: view

Transcripts for EIF3F Gene

mRNA/cDNA for EIF3F Gene

1 REFSEQ mRNAs :
14 NCBI additional mRNA sequence :
9 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for EIF3F

Alternative Splicing Database (ASD) splice patterns (SP) for EIF3F Gene

No ASD Table

Relevant External Links for EIF3F Gene

GeneLoc Exon Structure for
EIF3F

Expression for EIF3F Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for EIF3F Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for EIF3F Gene



Protein tissue co-expression partners for EIF3F Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for EIF3F

SOURCE GeneReport for Unigene cluster for EIF3F Gene:

Hs.516023

Evidence on tissue expression from TISSUES for EIF3F Gene

  • Nervous system(4.9)
  • Liver(4.9)
  • Lung(4.8)
  • Muscle(4)
  • Intestine(4)
  • Pancreas(3.8)
  • Eye(3.2)
  • Skin(3.2)
  • Blood(2.7)
  • Kidney(2.6)
  • Heart(2.5)
  • Spleen(2.4)
genes like me logo Genes that share expression patterns with EIF3F: view

No data available for mRNA differential expression in normal tissues , Protein differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for EIF3F Gene

Orthologs for EIF3F Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for EIF3F Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia EIF3F 30 31
  • 98.99 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia EIF3F 31
  • 94 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia EIF3F 30 31
  • 90.38 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Eif3f 30 17 31
  • 88.7 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Eif3f 30
  • 87.36 (n)
Dog
(Canis familiaris)
Mammalia EIF3F 30 31
  • 87.33 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia EIF3F 31
  • 85 (a)
OneToOne
Chicken
(Gallus gallus)
Aves EIF3F 30 31
  • 77.25 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia EIF3F 31
  • 85 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia eif3f 30
  • 75.59 (n)
Zebrafish
(Danio rerio)
Actinopterygii eif3f 30 31
  • 71.25 (n)
OneToOne
Dr.5392 30
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.11217 30
Fruit Fly
(Drosophila melanogaster)
Insecta CG9769 30 31
  • 55.76 (n)
OneToMany
CG8335 31
  • 35 (a)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta EIF3F_ANOGA 30
  • 55.39 (n)
Worm
(Caenorhabditis elegans)
Secernentea eif-3.F 30 31
  • 48.81 (n)
OneToOne
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPN8 31
  • 22 (a)
OneToMany
Thale Cress
(Arabidopsis thaliana)
eudicotyledons EIF2 30
  • 49.94 (n)
Rice
(Oryza sativa)
Liliopsida Os05g0104800 30
  • 49.39 (n)
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.5333 31
  • 51 (a)
OneToOne
Fission Yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPBC4C3.07 30
  • 46.61 (n)
Bread mold
(Neurospora crassa)
Ascomycetes NCU01021 30
  • 46.26 (n)
Sea Vase
(Ciona intestinalis)
Ascidiacea Cin.4777 30
Species where no ortholog for EIF3F was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for EIF3F Gene

ENSEMBL:
Gene Tree for EIF3F (if available)
TreeFam:
Gene Tree for EIF3F (if available)
Aminode:
Evolutionary constrained regions (ECRs) for EIF3F: view image

Paralogs for EIF3F Gene

Paralogs for EIF3F Gene

(1) SIMAP similar genes for EIF3F Gene using alignment to 6 proteins:

  • EIF3F_HUMAN
  • B3KSH1_HUMAN
  • B4DEW9_HUMAN
  • B4DMT5_HUMAN
  • E9PQV8_HUMAN
  • H0YDT6_HUMAN

Pseudogenes.org Pseudogenes for EIF3F Gene

genes like me logo Genes that share paralogs with EIF3F: view

Variants for EIF3F Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for EIF3F Gene

SNP ID Clinical significance and condition Chr 11 pos Variation AA Info Type
721838 Benign: not provided 7,994,498(+) C/T SYNONYMOUS_VARIANT
rs141976414 Pathogenic/Likely Pathogenic: INTELLECTUAL DEVELOPMENTAL DISORDER, AUTOSOMAL RECESSIVE 67; not provided. Intellectual developmental disorder, autosomal recessive 67 (MRT67) [MIM:618295] 7,994,466(+) T/Gp.Phe232Val MISSENSE_VARIANT
rs1043738 - p.Pro39Leu
rs1044058 - p.Trp172Leu

Additional dbSNP identifiers (rs#s) for EIF3F Gene

Structural Variations from Database of Genomic Variants (DGV) for EIF3F Gene

Variant ID Type Subtype PubMed ID
nsv499766 OTHER inversion 21111241
nsv7215 OTHER inversion 18451855

Variation tolerance for EIF3F Gene

Residual Variation Intolerance Score: 73.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.43; 63.98% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for EIF3F Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
EIF3F

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for EIF3F Gene

Disorders for EIF3F Gene

MalaCards: The human disease database

(1) MalaCards diseases for EIF3F Gene - From: UniProtKB/Swiss-Prot, OMIM, ClinVar, GTR, and GeneCards

- elite association - COSMIC cancer census association via MalaCards
Search EIF3F in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

EIF3F_HUMAN
  • Intellectual developmental disorder, autosomal recessive 67 (MRT67) [MIM:618295]: A form of mental retardation, a disorder characterized by significantly below average general intellectual functioning associated with impairments in adaptive behavior and manifested during the developmental period. Some MRT67 patients manifest seizures and sensorineural hearing loss. {ECO:0000269 PubMed:30409806}. Note=The disease may be caused by mutations affecting the gene represented in this entry.

Additional Disease Information for EIF3F

genes like me logo Genes that share disorders with EIF3F: view

No data available for Genatlas for EIF3F Gene

Publications for EIF3F Gene

  1. Structure of cDNAs encoding human eukaryotic initiation factor 3 subunits. Possible roles in RNA binding and macromolecular assembly. (PMID: 9341143) Asano K … Hershey JW (The Journal of biological chemistry 1997) 2 3 4
  2. eIF3 targets cell-proliferation messenger RNAs for translational activation or repression. (PMID: 25849773) Lee AS … Cate JH (Nature 2015) 3 4
  3. The translation initiation factor 3f (eIF3f) exhibits a deubiquitinase activity regulating Notch activation. (PMID: 21124883) Moretti J … Brou C (PLoS biology 2010) 3 4
  4. Genome-wide association scan of trait depression. (PMID: 20800221) Terracciano A … Costa PT (Biological psychiatry 2010) 3 41
  5. Mass spectrometry reveals modularity and a complete subunit interaction map of the eukaryotic translation factor eIF3. (PMID: 18599441) Zhou M … Robinson CV (Proceedings of the National Academy of Sciences of the United States of America 2008) 3 4

Products for EIF3F Gene

Sources for EIF3F Gene