DDX58 [The Human Chemical-Genetic Interaction Map Project]

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======= DDX58 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: DDX58
  * **<color #00a2e8>Official Name</color>**: DExD/H-box helicase 58
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=23586|23586]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/O95786|O95786]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=DDX58&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20DDX58|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**:  N/A

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  DEAD box proteins, characterized by the conserved motif Asp-Glu-Ala-Asp (DEAD), are putative RNA helicases which are implicated in a number of cellular processes involving RNA binding and alteration of RNA secondary structure. This gene encodes a protein containing RNA helicase-DEAD box protein motifs and a caspase recruitment domain (CARD). It is involved in viral double-stranded (ds) RNA recognition and the regulation of immune response. [provided by RefSeq, Jul 2008]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Innate immune receptor which acts as a cytoplasmic sensor of viral nucleic acids and plays a major role in sensing viral infection and in the activation of a cascade of antiviral responses including the induction of type I interferons and proinflammatory cytokines. Its ligands include: 5'- triphosphorylated ssRNA and dsRNA and short dsRNA (<1 kb in length). In addition to the 5'-triphosphate moiety, blunt-end base pairing at the 5'-end of the RNA is very essential. Overhangs at the non-triphosphorylated end of the dsRNA RNA have no major impact on its activity. A 3'overhang at the 5'triphosphate end decreases and any 5'overhang at the 5' triphosphate end abolishes its activity. Upon ligand binding it associates with mitochondria antiviral signaling protein (MAVS/IPS1) which activates the IKK- related kinases: TBK1 and IKBKE which phosphorylate interferon regulatory factors: IRF3 and IRF7 which in turn activate transcription of antiviral immunological genes, including interferons (IFNs); IFN-alpha and IFN-beta. Detects both positive and negative strand RNA viruses including members of the families Paramyxoviridae: Human respiratory syncytial virus and measles virus (MeV), Rhabdoviridae: vesicular stomatitis virus (VSV), Orthomyxoviridae: influenza A and B virus, Flaviviridae: Japanese encephalitis virus (JEV), hepatitis C virus (HCV), dengue virus (DENV) and west Nile virus (WNV). It also detects rotavirus and reovirus. Also involved in antiviral signaling in response to viruses containing a dsDNA genome such as Epstein-Barr virus (EBV). Detects dsRNA produced from non-self dsDNA by RNA polymerase III, such as Epstein-Barr virus-encoded RNAs (EBERs). May play important roles in granulocyte production and differentiation, bacterial phagocytosis and in the regulation of cell migration. {ECO:0000269|PubMed:15208624, ECO:0000269|PubMed:15708988, ECO:0000269|PubMed:16125763, ECO:0000269|PubMed:16127453, ECO:0000269|PubMed:16153868, ECO:0000269|PubMed:17190814, ECO:0000269|PubMed:18636086, ECO:0000269|PubMed:19122199, ECO:0000269|PubMed:19211564, ECO:0000269|PubMed:19576794, ECO:0000269|PubMed:19609254, ECO:0000269|PubMed:19631370, ECO:0000269|PubMed:21742966}.

<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'>
|Helicase C|
|RIG-I C-RD|
|DEAD|
|ResIII|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|RIG-I signaling pathway|
|regulation of type III interferon production|
|positive regulation of interferon-beta secretion|
|regulation of interferon-beta secretion|
|regulation of myeloid dendritic cell cytokine production|
|positive regulation of myeloid dendritic cell cytokine production|
|cytoplasmic pattern recognition receptor signaling pathway in response to virus|
|detection of virus|
|positive regulation of dendritic cell cytokine production|
|regulation of interferon-alpha secretion|
|positive regulation of interferon-alpha secretion|
|regulation of dendritic cell cytokine production|
|positive regulation of granulocyte macrophage colony-stimulating factor production|
|regulation of granulocyte macrophage colony-stimulating factor production|
|cellular response to exogenous dsRNA|
|positive regulation of myeloid leukocyte cytokine production involved in immune response|
|positive regulation of tumor necrosis factor secretion|
|cellular response to dsRNA|
|multi-organism cellular process|
|positive regulation of interferon-alpha production|
|positive regulation of defense response to virus by host|
|regulation of tumor necrosis factor secretion|
|regulation of interferon-alpha production|
|positive regulation of interferon-beta production|
|positive regulation of myeloid leukocyte mediated immunity|
|positive regulation of interleukin-6 secretion|
|cellular response to virus|
|cytoplasmic pattern recognition receptor signaling pathway|
|regulation of defense response to virus by host|
|negative regulation of type I interferon production|
|response to exogenous dsRNA|
|single-stranded RNA binding|
|regulation of interferon-beta production|
|positive regulation of interleukin-8 production|
|response to dsRNA|
|positive regulation of cytokine production involved in immune response|
|positive regulation of response to cytokine stimulus|
|regulation of myeloid leukocyte mediated immunity|
|RNA helicase activity|
|regulation of interleukin-8 production|
|double-stranded RNA binding|
|regulation of defense response to virus|
|positive regulation of type I interferon production|
|regulation of cytokine production involved in immune response|
|positive regulation of tumor necrosis factor production|
|positive regulation of tumor necrosis factor superfamily cytokine production|
|positive regulation of interleukin-6 production|
|ruffle membrane|
|positive regulation of production of molecular mediator of immune response|
|double-stranded DNA binding|
|bicellular tight junction|
|regulation of type I interferon production|
|pattern recognition receptor signaling pathway|
|positive regulation of leukocyte mediated immunity|
|positive regulation of cytokine secretion|
|regulation of interleukin-6 production|
|regulation of production of molecular mediator of immune response|
|regulation of tumor necrosis factor production|
|regulation of tumor necrosis factor superfamily cytokine production|
|intracellular receptor signaling pathway|
|regulation of response to cytokine stimulus|
|defense response to virus|
|regulation of cytokine secretion|
|regulation of leukocyte mediated immunity|
|actin cytoskeleton|
|positive regulation of immune effector process|
|innate immune response-activating signal transduction|
|activation of innate immune response|
|positive regulation of DNA-binding transcription factor activity|
|positive regulation of protein secretion|
|negative regulation of cytokine production|
|response to virus|
|protein deubiquitination|
|positive regulation of peptide secretion|
|ubiquitin protein ligase binding|
|protein modification by small protein removal|
|positive regulation of innate immune response|
|positive regulation of response to biotic stimulus|
|positive regulation of secretion by cell|
|positive regulation of protein transport|
|regulation of DNA-binding transcription factor activity|
|positive regulation of secretion|
|positive regulation of cytokine production|
|regulation of innate immune response|
|positive regulation of establishment of protein localization|
|regulation of protein secretion|
|regulation of immune effector process|
|positive regulation of defense response|
|regulation of peptide secretion|
|positive regulation of multi-organism process|
|regulation of response to biotic stimulus|
|cellular response to organic cyclic compound|
|immune response-activating signal transduction|
|immune response-regulating signaling pathway|
|positive regulation of response to external stimulus|
|activation of immune response|
|cellular response to nitrogen compound|
|regulation of cytokine production|
|viral process|
|regulation of protein transport|
|regulation of peptide transport|
|regulation of establishment of protein localization|
|regulation of secretion by cell|
|regulation of defense response|
|innate immune response|
|regulation of multi-organism process|
|symbiotic process|
|regulation of secretion|
|interspecies interaction between organisms|
|zinc ion binding|
|regulation of cell migration|
|positive regulation of immune response|
|regulation of cell motility|
|response to organic cyclic compound|
|defense response to other organism|
|regulation of locomotion|
|protein modification by small protein conjugation or removal|
|positive regulation of transport|
|regulation of cellular component movement|
|regulation of protein localization|
|identical protein binding|
|response to nitrogen compound|
|immune effector process|
|regulation of response to external stimulus|
|positive regulation of immune system process|
|regulation of immune response|
|negative regulation of multicellular organismal process|
|positive regulation of transcription by RNA polymerase II|
|proteolysis|
|response to other organism|
|response to external biotic stimulus|
|response to biotic stimulus|
|defense response|
|regulation of response to stress|
|ATP binding|
|positive regulation of transcription, DNA-templated|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|regulation of immune system process|
|intracellular signal transduction|
|positive regulation of RNA metabolic process|
|positive regulation of multicellular organismal process|
|positive regulation of molecular function|
|regulation of transport|
|immune response|
|positive regulation of nucleobase-containing compound metabolic process|
|positive regulation of macromolecule biosynthetic process|
|positive regulation of cellular biosynthetic process|
|positive regulation of gene expression|
|positive regulation of biosynthetic process|
</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:exp518|RK-33 8μM R08 exp518]]|1.9|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:r:rrm1|RRM1]]|0.426|
</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>**: 10025
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 4.53 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='DDX58 Expression in NALM6 Cells: 4.53'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>