TRIM40 [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.
======= TRIM40 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: TRIM40
  * **<color #00a2e8>Official Name</color>**: tripartite motif containing 40
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=135644|135644]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q6P9F5|Q6P9F5]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=TRIM40&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20TRIM40|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/616976|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene encodes a member of the tripartite motif (TRIM) protein family. The encoded protein may play a role as a negative regulator against inflammation and carcinogenesis in the gastrointestinal tract. Alternatively spliced transcript variants that encode different protein isoforms have been described. [provided by RefSeq, Feb 2014]. 
  * **<color #00a2e8>UniProt Summary</color>**:  May function as an E3 ubiquitin-protein ligase of the NEDD8 conjugation pathway. Promotes neddylation of IKBKG/NEMO, stabilizing NFKBIA, and inhibiting of NF-kappaB nuclear translocation and activity. {ECO:0000269|PubMed:21474709}.

<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|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|IkappaB kinase complex|
|protein neddylation|
|negative regulation of NIK/NF-kappaB signaling|
|negative regulation of protein localization to nucleus|
|negative regulation of NF-kappaB transcription factor activity|
|regulation of NIK/NF-kappaB signaling|
|negative regulation of cellular protein localization|
|regulation of protein localization to nucleus|
|negative regulation of protein catabolic process|
|negative regulation of DNA-binding transcription factor activity|
|negative regulation of cell growth|
|negative regulation of growth|
|negative regulation of catabolic process|
|regulation of protein catabolic process|
|regulation of cell growth|
|regulation of DNA-binding transcription factor activity|
|negative regulation of intracellular signal transduction|
|regulation of cellular protein localization|
|regulation of growth|
|protein modification by small protein conjugation|
|zinc ion binding|
|regulation of cellular localization|
|protein modification by small protein conjugation or removal|
|regulation of catabolic process|
|regulation of protein localization|
|negative regulation of protein metabolic process|
|negative regulation of molecular function|
|negative regulation of signal transduction|
|negative regulation of cell communication|
|negative regulation of signaling|
|negative regulation of response to stimulus|
|regulation of intracellular signal transduction|
</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:exp470|Chloroquine 32μM R08 exp470]]|-2.09|
|[[:results:exp77|Prochlorperazine 5.2μM R02 exp77]]|-1.91|
|[[:results:exp536|Vitamin-D3 40μM R08 exp536]]|-1.74|
</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: 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>**: 8493
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: -2.96 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='TRIM40 Expression in NALM6 Cells: -2.96'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>