APOBEC3F [The Human Chemical-Genetic Interaction Map Project]

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======= APOBEC3F =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: APOBEC3F
  * **<color #00a2e8>Official Name</color>**: apolipoprotein B mRNA editing enzyme catalytic subunit 3F
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=200316|200316]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q8IUX4|Q8IUX4]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=APOBEC3F&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20APOBEC3F|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/608993|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**: N/A
  * **<color #00a2e8>UniProt Summary</color>**:  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. {ECO:0000269|PubMed:15152192, ECO:0000269|PubMed:16378963, ECO:0000269|PubMed:16527742, ECO:0000269|PubMed:19458006, ECO:0000269|PubMed:20062055, ECO:0000269|PubMed:20219927, ECO:0000269|PubMed:20335265, ECO:0000269|PubMed:21496894, ECO:0000269|PubMed:21835787, ECO:0000269|PubMed:22807680, ECO:0000269|PubMed:22915799, ECO:0000269|PubMed:23097438, ECO:0000269|PubMed:23152537}.

<button type='primary' size='sm' modal='Pfam_Domains'>Pfam Domains</button>
<button type='primary' size='sm' modal='GO_terms'>GO Terms</button>


<modal id='Pfam_Domains' size='lg' title='Pfam Domains'>
|APOBEC N|
|APOBEC C|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|apolipoprotein B mRNA editing enzyme complex|
|DNA cytosine deamination|
|cytidine deaminase activity|
|cytidine deamination|
|cytidine to uridine editing|
|cytidine metabolic process|
|cytidine catabolic process|
|DNA deamination|
|pyrimidine ribonucleoside catabolic process|
|negative regulation of single stranded viral RNA replication via double stranded DNA intermediate|
|pyrimidine ribonucleoside metabolic process|
|regulation of single stranded viral RNA replication via double stranded DNA intermediate|
|DNA demethylation|
|base conversion or substitution editing|
|pyrimidine nucleoside catabolic process|
|negative regulation of transposition|
|regulation of transposition|
|ribonucleoside catabolic process|
|DNA dealkylation|
|positive regulation of defense response to virus by host|
|nucleoside catabolic process|
|regulation of defense response to virus by host|
|pyrimidine nucleoside metabolic process|
|pyrimidine-containing compound catabolic process|
|glycosyl compound catabolic process|
|nucleobase-containing small molecule catabolic process|
|negative regulation of viral genome replication|
|demethylation|
|DNA methylation or demethylation|
|regulation of defense response to virus|
|ribonucleoside metabolic process|
|negative regulation of viral life cycle|
|P-body|
|DNA modification|
|regulation of viral genome replication|
|negative regulation of viral process|
|pyrimidine-containing compound metabolic process|
|nucleoside metabolic process|
|glycosyl compound metabolic process|
|regulation of viral life cycle|
|ribonucleoprotein complex|
|RNA modification|
|defense response to virus|
|carbohydrate derivative catabolic process|
|regulation of viral process|
|negative regulation of multi-organism process|
|regulation of symbiosis, encompassing mutualism through parasitism|
|response to virus|
|nucleobase-containing compound catabolic process|
|heterocycle catabolic process|
|cellular nitrogen compound catabolic process|
|small molecule catabolic process|
|aromatic compound catabolic process|
|regulation of immune effector process|
|organic cyclic compound catabolic process|
|regulation of response to biotic stimulus|
|nucleobase-containing small molecule metabolic process|
|DNA metabolic process|
|regulation of defense response|
|innate immune response|
|regulation of multi-organism process|
|zinc ion binding|
|defense response to other organism|
|carbohydrate derivative metabolic process|
|organonitrogen compound catabolic process|
|identical protein binding|
|immune effector process|
|regulation of response to external stimulus|
|response to other organism|
|response to external biotic stimulus|
|response to biotic stimulus|
|defense response|
|RNA binding|
|regulation of response to stress|
|regulation of immune system process|
|RNA metabolic process|
|small molecule metabolic process|
|organic substance catabolic process|
|cellular catabolic process|
|immune response|
</modal>
\\

 === CRISPR Data ===
<button type='primary' size='small' modal='Compound_Hit'>Compound Hit</button>
<button type='primary' size='small' modal='Most_Correlated_Genes'>Most Correlated Genes in Chemogenomics</button>
<button type='primary' size='small' modal='Essential_Avana'>Tissues where Essential in the Avana Dataset (DepMap 20Q1)</button>

<modal id='Compound_Hit' size='lg' title='Compound Hit'>
^Screen^Score^
|[[:results:exp380|NMS-873 0.07μM R07 exp380]]|-2.33|
|[[:results:exp528|TGF-beta1 44ng/ml R08 exp528]]|-1.93|
|[[:results:exp260|ABT-702 0.1μM R06 exp260]]|-1.76|
|[[:results:exp478|Doxorubicin 0.02μM R08 exp478]]|-1.7|
|[[:results:exp34|Rotenone 20μM R00 exp34]]|1.71|
|[[:results:exp470|Chloroquine 32μM R08 exp470]]|1.78|
|[[:results:exp422|Wiskostatin 3μM R07 exp422]]|1.85|
|[[:results:exp20|Etoposide 10μM R00 exp20]]|1.88|
|[[:results:exp199|Etoposide 0.3μM R05 exp199]]|2.21|
|[[:results:exp160|Ribavirin 10 to 15μM on day4 R04 exp160]]|2.22|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:h:hars|HARS]]|0.497|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 0/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|0/28|
|blood|0/28|
|bone|0/26|
|breast|0/33|
|central nervous system|0/56|
|cervix|0/4|
|colorectal|0/17|
|esophagus|0/13|
|fibroblast|0/1|
|gastric|0/16|
|kidney|0/21|
|liver|0/20|
|lung|0/75|
|lymphocyte|0/16|
|ovary|0/26|
|pancreas|0/24|
|peripheral nervous system|0/16|
|plasma cell|0/15|
|prostate|0/1|
|skin|0/24|
|soft tissue|0/9|
|thyroid|0/2|
|upper aerodigestive|0/22|
|urinary tract|0/29|
|uterus|0/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 10681
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 4.8 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='APOBEC3F Expression in NALM6 Cells: 4.8'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>