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Aliases for APOBEC3F Gene

Aliases for APOBEC3F Gene

  • Apolipoprotein B MRNA Editing Enzyme Catalytic Subunit 3F 2 3
  • Apolipoprotein B MRNA Editing Enzyme, Catalytic Polypeptide-Like 3F 2 3 5
  • Apolipoprotein B MRNA-Editing Enzyme Catalytic Polypeptide-Like 3F 3 4
  • A3F 3 4
  • Apolipoprotein B MRNA Editing Enzyme Catalytic Polypeptide Like 3F 3
  • Apolipoprotein B Editing Enzyme Catalytic Polypeptide-Like 3F 3
  • Apolipoprotein B MRNA Editing Enzyme Cytidine Deaminase 3
  • Induced Upon T-Cell Activation 3
  • BK150C2.4.MRNA 3
  • EC 3.5.4.- 4
  • EC 3.5.4 63
  • ARP8 3
  • KA6 3

External Ids for APOBEC3F Gene

Previous GeneCards Identifiers for APOBEC3F Gene

  • GC22P036031
  • GC22P036051
  • GC22P037679
  • GC22P037761
  • GC22P039436
  • GC22P022404

Summaries for APOBEC3F Gene

Entrez Gene Summary for APOBEC3F Gene

  • This gene is a member of the cytidine deaminase gene family. It is one of seven related genes or pseudogenes found in a cluster, thought to result from gene duplication, on chromosome 22. Members of the cluster encode proteins that are structurally and functionally related to the C to U RNA-editing cytidine deaminase APOBEC1. It is thought that the proteins may be RNA editing enzymes and have roles in growth or cell cycle control. Alternatively spliced transcript variants encoding different isoforms have been identified. [provided by RefSeq, Jul 2008]

GeneCards Summary for APOBEC3F Gene

APOBEC3F (Apolipoprotein B MRNA Editing Enzyme Catalytic Subunit 3F) is a Protein Coding gene. Diseases associated with APOBEC3F include hiv-1 and ipex syndrome. GO annotations related to this gene include poly(A) RNA binding and hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines. An important paralog of this gene is AICDA.

UniProtKB/Swiss-Prot for APOBEC3F Gene

  • DNA deaminase (cytidine deaminase) which acts as an inhibitor of retrovirus replication and retrotransposon mobility via deaminase-dependent and -independent mechanisms. Exhibits antiviral activity against vif-deficient HIV-1. After the penetration of retroviral nucleocapsids into target cells of infection and the initiation of reverse transcription, it can induce the conversion of cytosine to uracil in the minus-sense single-strand viral DNA, leading to G-to-A hypermutations in the subsequent plus-strand viral DNA. The resultant detrimental levels of mutations in the proviral genome, along with a deamination-independent mechanism that works prior to the proviral integration, together exert efficient antiretroviral effects in infected target cells. Selectively targets single-stranded DNA and does not deaminate double-stranded DNA or single- or double-stranded RNA. Exhibits antiviral activity also against hepatitis B virus (HBV), equine infectious anemia virus (EIAV), xenotropic MuLV-related virus (XMRV) and simian foamy virus (SFV) and may inhibit the mobility of LTR and non-LTR retrotransposons. May also play a role in the epigenetic regulation of gene expression through the process of active DNA demethylation.

Gene Wiki entry for APOBEC3F Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for APOBEC3F Gene

Genomics for APOBEC3F Gene

Regulatory Elements for APOBEC3F Gene

Enhancers for APOBEC3F Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around APOBEC3F on UCSC Golden Path with GeneCards custom track

Promoters for APOBEC3F Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around APOBEC3F on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the APOBEC3F gene promoter:

Genomic Location for APOBEC3F Gene

Chromosome:
22
Start:
39,040,604 bp from pter
End:
39,055,972 bp from pter
Size:
15,369 bases
Orientation:
Plus strand

Genomic View for APOBEC3F Gene

Genes around APOBEC3F on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
APOBEC3F Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for APOBEC3F Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for APOBEC3F Gene

Proteins for APOBEC3F Gene

  • Protein details for APOBEC3F Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IUX4-ABC3F_HUMAN
    Recommended name:
    DNA dC->dU-editing enzyme APOBEC-3F
    Protein Accession:
    Q8IUX4
    Secondary Accessions:
    • B0QYD4
    • Q45F03
    • Q6ICH3
    • Q7Z2N2
    • Q7Z2N5

    Protein attributes for APOBEC3F Gene

    Size:
    373 amino acids
    Molecular mass:
    45020 Da
    Cofactor:
    Name=Zn(2+); Xref=ChEBI:CHEBI:29105;
    Quaternary structure:
    • Binds HIV-1 Vif. In the absence of Vif protein, specifically packaged into HIV-1 virions. Interacts with APOBEC3G in an RNA-dependent manner. Interacts with AGO1, AGO2 and AGO3.
    Miscellaneous:
    • It is one of seven related genes or pseudogenes found in a cluster, thought to result from gene duplication, on chromosome 22.

    Three dimensional structures from OCA and Proteopedia for APOBEC3F Gene

    Alternative splice isoforms for APOBEC3F Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for APOBEC3F Gene

Proteomics data for APOBEC3F Gene at MOPED

Selected DME Specific Peptides for APOBEC3F Gene

Post-translational modifications for APOBEC3F Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for APOBEC3F Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

Domains & Families for APOBEC3F Gene

Suggested Antigen Peptide Sequences for APOBEC3F Gene

Graphical View of Domain Structure for InterPro Entry

Q8IUX4

UniProtKB/Swiss-Prot:

ABC3F_HUMAN :
  • The CMP/dCMP deaminase domain 1 mediates RNA binding, RNA-dependent oligomerization and virion incorporation whereas the CMP/dCMP deaminase domain 2 confers deoxycytidine deaminase activity and substrate sequence specificity.
  • Belongs to the cytidine and deoxycytidylate deaminase family.
Domain:
  • The CMP/dCMP deaminase domain 1 mediates RNA binding, RNA-dependent oligomerization and virion incorporation whereas the CMP/dCMP deaminase domain 2 confers deoxycytidine deaminase activity and substrate sequence specificity.
  • Contains 2 CMP/dCMP-type deaminase domains.
Family:
  • Belongs to the cytidine and deoxycytidylate deaminase family.
genes like me logo Genes that share domains with APOBEC3F: view

Function for APOBEC3F Gene

Molecular function for APOBEC3F Gene

UniProtKB/Swiss-Prot CatalyticActivity:
Cytidine + H(2)O = uridine + NH(3).
UniProtKB/Swiss-Prot EnzymeRegulation:
Antiviral activity is neutralized by the HIV-1 virion infectivity factor (VIF), that prevents its incorporation into progeny virions by both inhibiting its translation and/or by inducing its ubiquitination and subsequent degradation by the 26S proteasome.
UniProtKB/Swiss-Prot Function:
DNA deaminase (cytidine deaminase) which acts as an inhibitor of retrovirus replication and retrotransposon mobility via deaminase-dependent and -independent mechanisms. Exhibits antiviral activity against vif-deficient HIV-1. After the penetration of retroviral nucleocapsids into target cells of infection and the initiation of reverse transcription, it can induce the conversion of cytosine to uracil in the minus-sense single-strand viral DNA, leading to G-to-A hypermutations in the subsequent plus-strand viral DNA. The resultant detrimental levels of mutations in the proviral genome, along with a deamination-independent mechanism that works prior to the proviral integration, together exert efficient antiretroviral effects in infected target cells. Selectively targets single-stranded DNA and does not deaminate double-stranded DNA or single- or double-stranded RNA. Exhibits antiviral activity also against hepatitis B virus (HBV), equine infectious anemia virus (EIAV), xenotropic MuLV-related virus (XMRV) and simian foamy virus (SFV) and may inhibit the mobility of LTR and non-LTR retrotransposons. May also play a role in the epigenetic regulation of gene expression through the process of active DNA demethylation.
UniProtKB/Swiss-Prot Induction:
Up-regulated by IFN-alpha.

Enzyme Numbers (IUBMB) for APOBEC3F Gene

Gene Ontology (GO) - Molecular Function for APOBEC3F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004126 cytidine deaminase activity IDA 17121840
GO:0016787 hydrolase activity IEA --
GO:0044822 poly(A) RNA binding IDA 22681889
genes like me logo Genes that share ontologies with APOBEC3F: view
genes like me logo Genes that share phenotypes with APOBEC3F: view

Animal Model Products

CRISPR Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for APOBEC3F Gene

Localization for APOBEC3F Gene

Subcellular locations from UniProtKB/Swiss-Prot for APOBEC3F Gene

Cytoplasm. Cytoplasm, P-body.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for APOBEC3F Gene COMPARTMENTS Subcellular localization image for APOBEC3F gene
Compartment Confidence
nucleus 4

Gene Ontology (GO) - Cellular Components for APOBEC3F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030895 apolipoprotein B mRNA editing enzyme complex TAS 17121840
genes like me logo Genes that share ontologies with APOBEC3F: view

Pathways & Interactions for APOBEC3F Gene

SuperPathways for APOBEC3F Gene

No Data Available

Gene Ontology (GO) - Biological Process for APOBEC3F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002230 positive regulation of defense response to virus by host IDA 17121840
GO:0045071 negative regulation of viral genome replication IDA 16378963
GO:0045869 negative regulation of single stranded viral RNA replication via double stranded DNA intermediate IDA 17121840
GO:0048525 negative regulation of viral process IDA 17121840
GO:0051607 defense response to virus IDA 21835787
genes like me logo Genes that share ontologies with APOBEC3F: view

No data available for Pathways by source and SIGNOR curated interactions for APOBEC3F Gene

Drugs & Compounds for APOBEC3F Gene

(2) Drugs for APOBEC3F Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Cytidine Experimental Pharma 0
Uridine Experimental Pharma 0

(3) Additional Compounds for APOBEC3F Gene - From: HMDB and Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Ammonia
  • Ammonia anhydrous
  • Ammonia inhalant
  • Ammonia solution strong [usan]
  • Ammonia water
  • Ammoniak
7664-41-7
Water
  • Dihydrogen oxide
  • Steam
7732-18-5
genes like me logo Genes that share compounds with APOBEC3F: view

Transcripts for APOBEC3F Gene

Unigene Clusters for APOBEC3F Gene

Apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3F:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for APOBEC3F Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b · 9c ^ 10 ^ 11a · 11b ^ 12a · 12b · 12c ^ 13a · 13b ^ 14a · 14b ^ 15 ^ 16 ^ 17
SP1: - - -
SP2: - - - - - - - - - - - - - -
SP3: - - - - - - - - - - - -
SP4: -
SP5:
SP6:
SP7: - - - - - - - - - - - -
SP8: -
SP9: -
SP10: - - -

Relevant External Links for APOBEC3F Gene

GeneLoc Exon Structure for
APOBEC3F
ECgene alternative splicing isoforms for
APOBEC3F

Expression for APOBEC3F Gene

mRNA expression in normal human tissues for APOBEC3F Gene

Protein differential expression in normal tissues from HIPED for APOBEC3F Gene

This gene is overexpressed in Ovary (16.0), Lung (13.2), Blymphocyte (11.2), and NK cells (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for APOBEC3F Gene



SOURCE GeneReport for Unigene cluster for APOBEC3F Gene Hs.659809

mRNA Expression by UniProt/SwissProt for APOBEC3F Gene

Q8IUX4-ABC3F_HUMAN
Tissue specificity: Widely expressed. Highly expressed in ovary.
genes like me logo Genes that share expression patterns with APOBEC3F: view

Protein tissue co-expression partners for APOBEC3F Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for APOBEC3F Gene

Orthologs for APOBEC3F Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for APOBEC3F Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia APOBEC3F 35
  • 98.48 (n)
  • 96.78 (a)
Species with no ortholog for APOBEC3F:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for APOBEC3F Gene

ENSEMBL:
Gene Tree for APOBEC3F (if available)
TreeFam:
Gene Tree for APOBEC3F (if available)

Paralogs for APOBEC3F Gene

(11) SIMAP similar genes for APOBEC3F Gene using alignment to 3 proteins:

Pseudogenes.org Pseudogenes for APOBEC3F Gene

genes like me logo Genes that share paralogs with APOBEC3F: view

Variants for APOBEC3F Gene

Sequence variations from dbSNP and Humsavar for APOBEC3F Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type
VAR_018145 -
VAR_018146 -
rs2020390 - 39,045,091(+) TCCTG(G/T)CTGAG reference, missense
rs2076101 - 39,049,549(+) CACCT(A/G)TCTCC reference, missense
rs34182094 - 39,045,508(+) ATTAT(A/G)CATTC reference, missense

Structural Variations from Database of Genomic Variants (DGV) for APOBEC3F Gene

Variant ID Type Subtype PubMed ID
nsv915081 CNV Gain 21882294
nsv834196 CNV Loss 17160897
nsv915083 CNV Loss 21882294
esv2724242 CNV Deletion 23290073
esv2724243 CNV Deletion 23290073
esv2676044 CNV Deletion 23128226
esv22523 CNV Gain 19812545
nsv915084 CNV Loss 21882294
esv2673637 CNV Deletion 23128226
nsv522083 CNV Loss 19592680
nsv915085 CNV Gain 21882294

Variation tolerance for APOBEC3F Gene

Residual Variation Intolerance Score: 85.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.35; 70.85% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for APOBEC3F Gene

HapMap Linkage Disequilibrium report
APOBEC3F

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for APOBEC3F Gene

Disorders for APOBEC3F Gene

MalaCards: The human disease database

(2) MalaCards diseases for APOBEC3F Gene - From: Novoseek and GeneCards

Disorder Aliases PubMed IDs
hiv-1
  • aids, slow progression to
ipex syndrome
  • immunodeficiency
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for APOBEC3F

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
APOBEC3F
genes like me logo Genes that share disorders with APOBEC3F: view

No data available for UniProtKB/Swiss-Prot and Genatlas for APOBEC3F Gene

Publications for APOBEC3F Gene

  1. An anthropoid-specific locus of orphan C to U RNA-editing enzymes on chromosome 22. (PMID: 11863358) Jarmuz A. … Navaratnam N. (Genomics 2002) 2 3 4 67
  2. APOBEC3F can inhibit the accumulation of HIV-1 reverse transcription products in the absence of hypermutation. Comparisons with APOBEC3G. (PMID: 17121840) Holmes R.K. … Malim M.H. (J. Biol. Chem. 2007) 2 3 23
  3. Inhibition of LINE-1 and Alu retrotransposition by exosomes encapsidating APOBEC3G and APOBEC3F. (PMID: 20153011) Khatua A.K. … Popik W. (Virology 2010) 3 23
  4. Different interaction between HIV-1 Vif and its cellular target proteins APOBEC3G/APOBEC3F. (PMID: 20299747) Nagao T. … Adachi A. (J. Med. Invest. 2010) 3 23
  5. APOBEC proteins and intrinsic resistance to HIV-1 infection. (PMID: 19038776) Malim M.H. (Philos. Trans. R. Soc. Lond., B, Biol. Sci. 2009) 3 23

Products for APOBEC3F Gene

Sources for APOBEC3F Gene

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