SYVN1 [The Human Chemical-Genetic Interaction Map Project]

This page is read only. You can view the source, but not change it. Ask your administrator if you think this is wrong.
======= SYVN1 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: SYVN1
  * **<color #00a2e8>Official Name</color>**: synoviolin 1
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=84447|84447]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q86TM6|Q86TM6]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=SYVN1&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20SYVN1|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/608046|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene encodes a protein involved in endoplasmic reticulum (ER)-associated degradation. The encoded protein removes unfolded proteins, accumulated during ER stress, by retrograde transport to the cytosol from the ER. This protein also uses the ubiquitin-proteasome system for additional degradation of unfolded proteins. Sequence analysis identified two transcript variants that encode different isoforms. [provided by RefSeq, May 2011]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC7 E2 ligase and transfers it to substrates, promoting their degradation (PubMed:12459480, PubMed:12646171, PubMed:12975321, PubMed:14593114, PubMed:16289116, PubMed:16847254, PubMed:17059562, PubMed:17141218, PubMed:17170702, PubMed:22607976, PubMed:26471130). Component of the endoplasmic reticulum quality control (ERQC) system also called ER-associated degradation (ERAD) involved in ubiquitin-dependent degradation of misfolded endoplasmic reticulum proteins (PubMed:12459480, PubMed:12646171, PubMed:12975321, PubMed:14593114, PubMed:16289116, PubMed:16847254, PubMed:17059562, PubMed:17141218, PubMed:17170702, PubMed:22607976, PubMed:26471130). Also promotes the degradation of normal but naturally short-lived proteins such as SGK. Protects cells from ER stress-induced apoptosis. Protects neurons from apoptosis induced by polyglutamine-expanded huntingtin (HTT) or unfolded GPR37 by promoting their degradation (PubMed:17141218). Sequesters p53/TP53 in the cytoplasm and promotes its degradation, thereby negatively regulating its biological function in transcription, cell cycle regulation and apoptosis (PubMed:17170702). Mediates the ubiquitination and subsequent degradation of cytoplasmic NFE2L1 (By similarity). {ECO:0000250|UniProtKB:Q9DBY1, ECO:0000269|PubMed:12459480, ECO:0000269|PubMed:12646171, ECO:0000269|PubMed:12975321, ECO:0000269|PubMed:14593114, ECO:0000269|PubMed:16289116, ECO:0000269|PubMed:16847254, ECO:0000269|PubMed:17059562, ECO:0000269|PubMed:17141218, ECO:0000269|PubMed:17170702, ECO:0000269|PubMed:22607976, ECO:0000269|PubMed:26471130}.

<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'>
|zf-C3HC4|
|zf-rbx1|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|Hrd1p ubiquitin ligase complex|
|Hrd1p ubiquitin ligase ERAD-L complex|
|Derlin-1 retrotranslocation complex|
|endoplasmic reticulum mannose trimming|
|ubiquitin-specific protease binding|
|endoplasmic reticulum to cytosol transport|
|retrograde protein transport, ER to cytosol|
|negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway|
|protein demannosylation|
|protein alpha-1,2-demannosylation|
|endoplasmic reticulum quality control compartment|
|protein exit from endoplasmic reticulum|
|smooth endoplasmic reticulum|
|protein deglycosylation|
|regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway|
|protein N-linked glycosylation via asparagine|
|peptidyl-asparagine modification|
|negative regulation of response to endoplasmic reticulum stress|
|protein K48-linked ubiquitination|
|IRE1-mediated unfolded protein response|
|ubiquitin-dependent ERAD pathway|
|protein N-linked glycosylation|
|ATPase binding|
|regulation of response to endoplasmic reticulum stress|
|ERAD pathway|
|negative regulation of intrinsic apoptotic signaling pathway|
|chaperone binding|
|endoplasmic reticulum unfolded protein response|
|integral component of endoplasmic reticulum membrane|
|cellular response to unfolded protein|
|unfolded protein binding|
|cellular response to topologically incorrect protein|
|regulation of intrinsic apoptotic signaling pathway|
|response to unfolded protein|
|protein stabilization|
|response to topologically incorrect protein|
|ubiquitin protein ligase activity|
|negative regulation of apoptotic signaling pathway|
|protein glycosylation|
|response to endoplasmic reticulum stress|
|macromolecule glycosylation|
|glycosylation|
|regulation of protein stability|
|protein polyubiquitination|
|glycoprotein biosynthetic process|
|proteasome-mediated ubiquitin-dependent protein catabolic process|
|proteasomal protein catabolic process|
|glycoprotein metabolic process|
|regulation of apoptotic signaling pathway|
|negative regulation of intracellular signal transduction|
|ubiquitin-dependent protein catabolic process|
|modification-dependent protein catabolic process|
|modification-dependent macromolecule catabolic process|
|proteolysis involved in cellular protein catabolic process|
|carbohydrate derivative biosynthetic process|
|cellular protein catabolic process|
|protein catabolic process|
|protein ubiquitination|
|regulation of cellular response to stress|
|protein modification by small protein conjugation|
|peptidyl-amino acid modification|
|negative regulation of apoptotic process|
|cellular macromolecule catabolic process|
|negative regulation of programmed cell death|
|endoplasmic reticulum membrane|
|protein modification by small protein conjugation or removal|
|intracellular protein transport|
|negative regulation of cell death|
|response to organonitrogen compound|
|endoplasmic reticulum|
|carbohydrate derivative metabolic process|
|macromolecule catabolic process|
|organonitrogen compound catabolic process|
|response to nitrogen compound|
|negative regulation of signal transduction|
|proteolysis|
|negative regulation of cell communication|
|negative regulation of signaling|
|organonitrogen compound biosynthetic process|
|regulation of response to stress|
|protein transport|
|intracellular transport|
|peptide transport|
|regulation of apoptotic process|
|regulation of programmed cell death|
|amide transport|
|cellular protein localization|
|cellular macromolecule localization|
|establishment of protein localization|
|negative regulation of response to stimulus|
|regulation of cell death|
|cellular response to stress|
|cellular macromolecule biosynthetic process|
|macromolecule biosynthetic process|
|organic substance catabolic process|
|cellular catabolic process|
|regulation of intracellular signal transduction|
|establishment of localization in cell|
|nitrogen compound transport|
|membrane|
</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]]|-3.18|
|[[:results:exp504|MK2206 4μM R08 exp504]]|-2.1|
|[[:results:exp94|Nocodazole 0.1μM R03 exp94]]|-2.04|
|[[:results:exp26|Oligomycin-A 20μM R00 exp26]]|-1.94|
|[[:results:exp435|JQ1 0.8μM R08 exp435]]|-1.93|
|[[:results:exp215|Colchicine 0.009μM R05 exp215]]|-1.75|
|[[:results:exp346|CoCl2 18μM R07 exp346]]|-1.72|
|[[:results:exp126|GSK461364A 0.1μM R03 exp126]]|-1.71|
|[[:results:exp352|Dexamethasone 0.006 to 0.015μM on day4 R07 exp352]]|1.73|
|[[:results:exp426|FBS-Wisent 0.1 R07 exp426]]|1.77|
|[[:results:exp421|VHL-ligand-1 20μM R07 exp421]]|1.78|
|[[:results:exp42|BI-6727 0.001μM R01 exp42]]|1.79|
|[[:results:exp461|BS-181 20μM R08 exp461]]|1.79|
|[[:results:exp285|GW501516 25μM R06 exp285]]|1.81|
|[[:results:exp125|GSK461364A 0.005μM R03 exp125]]|1.93|
|[[:results:exp243|S-trityl-L-cysteine 0.5μM R05 exp243]]|1.93|
|[[:results:exp481|Ethambutol 25μM R08 exp481]]|1.95|
|[[:results:exp414|Tozasertib 0.1μM R07 exp414]]|1.98|
|[[:results:exp103|Taxol 0.004μM R03 exp103]]|2.06|
|[[:results:exp95|BI-2536 0.0042μM R03 exp95]]|2.12|
|[[:results:exp128|GSK591 2.6μM R03 exp128]]|2.12|
|[[:results:exp142|OICR-9429 10μM R03 exp142]]|2.21|
|[[:results:exp169|BH1 1μM R04 exp169]]|3.07|
</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: 11/739
^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|1/56|
|cervix|0/4|
|colorectal|0/17|
|esophagus|0/13|
|fibroblast|0/1|
|gastric|0/16|
|kidney|0/21|
|liver|0/20|
|lung|1/75|
|lymphocyte|0/16|
|ovary|0/26|
|pancreas|0/24|
|peripheral nervous system|0/16|
|plasma cell|6/15|
|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>**: 504
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 8.38 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='SYVN1 Expression in NALM6 Cells: 8.38'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>