PDCD6 [The Human Chemical-Genetic Interaction Map Project]

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======= PDCD6 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: PDCD6
  * **<color #00a2e8>Official Name</color>**: programmed cell death 6
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=10016|10016]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/O75340|O75340]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=PDCD6&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20PDCD6|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/601057|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**: N/A
  * **<color #00a2e8>UniProt Summary</color>**:  Calcium sensor that plays a key role in processes such as endoplasmic reticulum (ER)-Golgi vesicular transport, endosomal biogenesis or membrane repair. Acts as an adapter that bridges unrelated proteins or stabilizes weak protein-protein complexes in response to calcium: calcium-binding triggers exposure of apolar surface, promoting interaction with different sets of proteins thanks to 3 different hydrophobic pockets, leading to translocation to membranes (PubMed:20691033, PubMed:25667979). Involved in ER-Golgi transport by promoting the association between PDCD6IP and TSG101, thereby bridging together the ESCRT- III and ESCRT-I complexes (PubMed:19520058). Together with PEF1, acts as calcium-dependent adapter for the BCR(KLHL12) complex, a complex involved in ER-Golgi transport by regulating the size of COPII coats (PubMed:27716508). In response to cytosolic calcium increase, the heterodimer formed with PEF1 interacts with, and bridges together the BCR(KLHL12) complex and SEC31 (SEC31A or SEC31B), promoting monoubiquitination of SEC31 and subsequent collagen export, which is required for neural crest specification (PubMed:27716508). Involved in the regulation of the distribution and function of MCOLN1 in the endosomal pathway (PubMed:19864416). Promotes localization and polymerization of TFG at endoplasmic reticulum exit site (PubMed:27813252). Required for T-cell receptor-, Fas-, and glucocorticoid-induced apoptosis (By similarity). May mediate Ca(2+)-regulated signals along the death pathway: interaction with DAPK1 can accelerate apoptotic cell death by increasing caspase-3 activity (PubMed:16132846). Its role in apoptosis may however be indirect, as suggested by knockout experiments (By similarity). May inhibit KDR/VEGFR2-dependent angiogenesis; the function involves inhibition of VEGF-induced phosphorylation of the Akt signaling pathway (PubMed:21893193). In case of infection by HIV-1 virus, indirectly inhibits HIV-1 production by affecting viral Gag expression and distribution (PubMed:27784779). {ECO:0000250|UniProtKB:P12815, ECO:0000269|PubMed:16132846, ECO:0000269|PubMed:19520058, ECO:0000269|PubMed:19864416, ECO:0000269|PubMed:20691033, ECO:0000269|PubMed:21893193, ECO:0000269|PubMed:25667979, ECO:0000269|PubMed:27716508, ECO:0000269|PubMed:27784779, ECO:0000269|PubMed:27813252}.

<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'>
|efhand|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|vascular endothelial growth factor receptor-2 signaling pathway|
|positive regulation of protein monoubiquitination|
|regulation of protein monoubiquitination|
|neural crest formation|
|negative regulation of vascular endothelial growth factor receptor signaling pathway|
|protein membrane anchor|
|COPII vesicle coat|
|endoplasmic reticulum exit site|
|regulation of vascular endothelial growth factor receptor signaling pathway|
|Cul3-RING ubiquitin ligase complex|
|negative regulation of protein kinase B signaling|
|molecular adaptor activity|
|negative regulation of TOR signaling|
|calcium-dependent protein binding|
|COPII vesicle coating|
|vesicle targeting, rough ER to cis-Golgi|
|vesicle coating|
|vascular endothelial growth factor receptor signaling pathway|
|COPII-coated vesicle budding|
|epithelial to mesenchymal transition|
|cellular response to heat|
|vesicle targeting, to, from or within Golgi|
|Golgi vesicle budding|
|protein binding, bridging|
|neural crest cell development|
|mesenchymal cell development|
|stem cell development|
|activation of cysteine-type endopeptidase activity involved in apoptotic process|
|neural crest cell differentiation|
|vesicle targeting|
|positive regulation of endothelial cell proliferation|
|vesicle budding from membrane|
|positive regulation of endothelial cell migration|
|regulation of TOR signaling|
|response to heat|
|positive regulation of protein ubiquitination|
|regulation of endothelial cell proliferation|
|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process|
|positive regulation of protein modification by small protein conjugation or removal|
|positive regulation of epithelial cell migration|
|negative regulation of cellular response to growth factor stimulus|
|positive regulation of cysteine-type endopeptidase activity|
|response to calcium ion|
|mesenchymal cell differentiation|
|stem cell differentiation|
|regulation of endothelial cell migration|
|protein dimerization activity|
|positive regulation of angiogenesis|
|positive regulation of endopeptidase activity|
|establishment of vesicle localization|
|response to temperature stimulus|
|positive regulation of vasculature development|
|vesicle localization|
|positive regulation of epithelial cell proliferation|
|positive regulation of peptidase activity|
|regulation of protein ubiquitination|
|endoplasmic reticulum to Golgi vesicle-mediated transport|
|regulation of cysteine-type endopeptidase activity involved in apoptotic process|
|magnesium ion binding|
|regulation of protein kinase B signaling|
|regulation of epithelial cell migration|
|mesenchyme development|
|regulation of protein modification by small protein conjugation or removal|
|regulation of cysteine-type endopeptidase activity|
|cytoplasmic vesicle|
|endosome|
|regulation of cellular response to growth factor stimulus|
|apoptotic signaling pathway|
|regulation of angiogenesis|
|vesicle organization|
|angiogenesis|
|regulation of vasculature development|
|regulation of epithelial cell proliferation|
|positive regulation of proteolysis|
|establishment of organelle localization|
|response to metal ion|
|Golgi vesicle transport|
|blood vessel morphogenesis|
|regulation of endopeptidase activity|
|regulation of peptidase activity|
|blood vessel development|
|positive regulation of cell migration|
|negative regulation of intracellular signal transduction|
|vasculature development|
|transmembrane receptor protein tyrosine kinase signaling pathway|
|cardiovascular system development|
|positive regulation of cell motility|
|response to inorganic substance|
|positive regulation of cellular component movement|
|positive regulation of locomotion|
|organelle localization|
|Golgi membrane|
|chordate embryonic development|
|positive regulation of apoptotic process|
|positive regulation of programmed cell death|
|embryo development ending in birth or egg hatching|
|tube morphogenesis|
|positive regulation of cell death|
|enzyme linked receptor protein signaling pathway|
|calcium ion binding|
|regulation of proteolysis|
|positive regulation of hydrolase activity|
|tube development|
|regulation of cell migration|
|membrane organization|
|circulatory system development|
|protein homodimerization activity|
|anatomical structure formation involved in morphogenesis|
|regulation of cell motility|
|positive regulation of cell population proliferation|
|apoptotic process|
|endoplasmic reticulum membrane|
|embryo development|
|regulation of locomotion|
|regulation of cellular component movement|
|intracellular protein transport|
|endoplasmic reticulum|
|programmed cell death|
|regulation of anatomical structure morphogenesis|
|identical protein binding|
|cell death|
|response to abiotic stimulus|
|positive regulation of protein modification process|
|negative regulation of signal transduction|
|regulation of hydrolase activity|
|negative regulation of cell communication|
|negative regulation of signaling|
|positive regulation of developmental process|
|positive regulation of catalytic activity|
|protein transport|
|intracellular transport|
|peptide transport|
|regulation of apoptotic process|
|protein-containing complex assembly|
|regulation of programmed cell death|
|amide transport|
|cellular protein localization|
|cellular macromolecule localization|
|positive regulation of cellular protein metabolic process|
|establishment of protein localization|
|regulation of cell population proliferation|
|negative regulation of response to stimulus|
|cell development|
|regulation of cell death|
|cellular response to stress|
|positive regulation of protein metabolic process|
|positive regulation of multicellular organismal process|
|tissue development|
|positive regulation of molecular function|
|regulation of intracellular signal transduction|
|establishment of localization in cell|
|regulation of protein modification process|
|nitrogen compound transport|
|protein-containing complex subunit organization|
|vesicle-mediated transport|
</modal>
\\

 === CRISPR Data ===
<button type='primary' size='small' modal='Compound_Hit'>Compound Hit</button>
<button type='default' 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:exp320|ABT-702 5μM plus CoCl2 18μM R07 exp320]]|-1.79|
|[[:results:exp515|PU-H71 1μM R08 exp515]]|-1.71|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
No correlation found to any other genes in chemogenomics.
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 44/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|4/28|
|blood|1/28|
|bone|1/26|
|breast|2/33|
|central nervous system|2/56|
|cervix|0/4|
|colorectal|5/17|
|esophagus|0/13|
|fibroblast|0/1|
|gastric|2/16|
|kidney|0/21|
|liver|1/20|
|lung|2/75|
|lymphocyte|2/16|
|ovary|2/26|
|pancreas|0/24|
|peripheral nervous system|0/16|
|plasma cell|4/15|
|prostate|0/1|
|skin|0/24|
|soft tissue|0/9|
|thyroid|0/2|
|upper aerodigestive|2/22|
|urinary tract|3/29|
|uterus|0/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 7848
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 5.93 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='PDCD6 Expression in NALM6 Cells: 5.93'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>