SEPSECS [The Human Chemical-Genetic Interaction Map Project]

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======= SEPSECS =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: SEPSECS
  * **<color #00a2e8>Official Name</color>**: Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=51091|51091]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q9HD40|Q9HD40]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=SEPSECS&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20SEPSECS|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/613009|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  The amino acid selenocysteine is the only amino acid that does not have its own tRNA synthetase. Instead, this amino acid is synthesized on its cognate tRNA in a three step process. The protein encoded by this gene catalyzes the third step in the process, the conversion of O-phosphoseryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec).[provided by RefSeq, Mar 2011]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Converts O-phosphoseryl-tRNA(Sec) to selenocysteinyl- tRNA(Sec) required for selenoprotein biosynthesis. {ECO:0000269|PubMed:17142313}.

<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'>
|SLA LP auto ag|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|transferase activity, transferring selenium-containing groups|
|selenocysteinyl-tRNA(Sec) biosynthetic process|
|selenocysteine metabolic process|
|translational readthrough|
|selenocysteine incorporation|
|serine family amino acid metabolic process|
|tRNA binding|
|translational elongation|
|tRNA metabolic process|
|alpha-amino acid metabolic process|
|cellular amino acid metabolic process|
|regulation of translation|
|translation|
|regulation of cellular amide metabolic process|
|peptide biosynthetic process|
|ncRNA metabolic process|
|posttranscriptional regulation of gene expression|
|amide biosynthetic process|
|peptide metabolic process|
|RNA biosynthetic process|
|cellular amide metabolic process|
|carboxylic acid metabolic process|
|oxoacid metabolic process|
|organic acid metabolic process|
|nucleobase-containing compound biosynthetic process|
|heterocycle biosynthetic process|
|aromatic compound biosynthetic process|
|organic cyclic compound biosynthetic process|
|organonitrogen compound biosynthetic process|
|cellular nitrogen compound biosynthetic process|
|RNA metabolic process|
|cellular macromolecule biosynthetic process|
|small molecule metabolic process|
|macromolecule biosynthetic process|
|gene expression|
</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:exp160|Ribavirin 10 to 15μM on day4 R04 exp160]]|-3.15|
|[[:results:exp184|Ixabepilone 0.004 to 0.005μM on day4 R04 exp184]]|-2.9|
|[[:results:exp176|Apcin 50 to 100μM on day4 R04 exp176]]|-2.6|
|[[:results:exp169|BH1 1μM R04 exp169]]|-2.55|
|[[:results:exp455|Benzoate 10000μM R08 exp455]]|-2.53|
|[[:results:exp20|Etoposide 10μM R00 exp20]]|-2.47|
|[[:results:exp190|Vincristine 0.0005μM R04 exp190]]|-2.47|
|[[:results:exp231|Epothilone-B 0.0015μM R05 exp231]]|-2.42|
|[[:results:exp219|A-395N 10μM R05 exp219]]|-2.4|
|[[:results:exp113|1-Methyl-nicotinamide-chloride 1000μM R03 exp113]]|-2.35|
|[[:results:exp198|Etoposide 0.1μM R05 exp198]]|-2.33|
|[[:results:exp133|MKC9989 10μM R03 exp133]]|-2.33|
|[[:results:exp232|Epothilone-D 0.004 to 0.006μM on day4 R05 exp232]]|-2.29|
|[[:results:exp416|Tubacin 1.6μM R07 exp416]]|-2.28|
|[[:results:exp449|Arsenic trioxide 60μM R08 exp449]]|-2.26|
|[[:results:exp159|Docetaxel 0.001 to 0.002μM on day4 R04 exp159]]|-2.25|
|[[:results:exp187|proTAME 5μM R04 exp187]]|-2.22|
|[[:results:exp81|Selumetinib 20μM R02 exp81]]|-2.21|
|[[:results:exp84|UM0125461 0.74μM R02 exp84]]|-2.11|
|[[:results:exp352|Dexamethasone 0.006 to 0.015μM on day4 R07 exp352]]|-2.08|
|[[:results:exp460|BML-284 0.09μM R08 exp460]]|-2.06|
|[[:results:exp139|Nicotinamide Riboside 100μM R03 exp139]]|-2.05|
|[[:results:exp223|Cabazitaxel 0.001μM R05 exp223]]|-2.03|
|[[:results:exp140|Nicotinate 1000μM R03 exp140]]|-2.01|
|[[:results:exp103|Taxol 0.004μM R03 exp103]]|-2|
|[[:results:exp131|L-74142 5μM R03 exp131]]|-1.99|
|[[:results:exp238|Parthenolide 2.5μM R05 exp238]]|-1.98|
|[[:results:exp123|GSK-LSD1 10μM R03 exp123]]|-1.97|
|[[:results:exp189|Temozolomide 200μM R04 exp189]]|-1.94|
|[[:results:exp130|JQ1 0.01μM R03 exp130]]|-1.93|
|[[:results:exp95|BI-2536 0.0042μM R03 exp95]]|-1.91|
|[[:results:exp293|Myriocin 25μM R06 exp293]]|-1.91|
|[[:results:exp450|Artemisinin 50μM R08 exp450]]|-1.9|
|[[:results:exp114|A-196 10μM R03 exp114]]|-1.89|
|[[:results:exp316|Geldanamycin 0.015 to 0.025μM on day4 R07 exp316]]|-1.88|
|[[:results:exp143|Phenformin 20μM R03 exp143]]|-1.88|
|[[:results:exp177|Apcin 25μM plus proTAME 2μM R04 exp177]]|-1.86|
|[[:results:exp285|GW501516 25μM R06 exp285]]|-1.83|
|[[:results:exp242|Radicicol 0.16μM R05 exp242]]|-1.82|
|[[:results:exp273|Cisplatin 0.35μM R06 exp273]]|-1.8|
|[[:results:exp278|CVT-10216 0.1μM R06 exp278]]|-1.8|
|[[:results:exp382|Palbociclib 1μM R07 exp382]]|-1.75|
|[[:results:exp179|Combretastatin A4 0.002 to 0.003μM day4 R04 exp179]]|-1.74|
|[[:results:exp448|Ammonium tetrathiomolybdate 10μM R08 exp448]]|-1.7|
|[[:results:exp320|ABT-702 5μM plus CoCl2 18μM R07 exp320]]|1.7|
|[[:results:exp321|ABT-702 5μM plus Deferoxamine 11μM R07 exp321]]|1.71|
|[[:results:exp346|CoCl2 18μM R07 exp346]]|2.1|
|[[:results:exp85|UM0129480 7μM R02 exp85]]|2.58|
|[[:results:exp71|KU-0063794 3.8μM R02 exp71]]|2.84|
|[[:results:exp288|HMS-I2 10μM R06 exp288]]|3.5|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:e:eefsec|EEFSEC]]|0.657|
|[[:human genes:g:gclc|GCLC]]|0.452|
|[[:human genes:p:pstk|PSTK]]|0.444|
|[[:human genes:p:ppcdc|PPCDC]]|0.442|
|[[:human genes:d:ddx39a|DDX39A]]|0.421|
|[[:human genes:p:ptar1|PTAR1]]|0.409|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 168/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|4/28|
|blood|6/28|
|bone|13/26|
|breast|7/33|
|central nervous system|22/56|
|cervix|0/4|
|colorectal|0/17|
|esophagus|2/13|
|fibroblast|1/1|
|gastric|3/16|
|kidney|7/21|
|liver|11/20|
|lung|15/75|
|lymphocyte|5/16|
|ovary|6/26|
|pancreas|3/24|
|peripheral nervous system|3/16|
|plasma cell|3/15|
|prostate|0/1|
|skin|4/24|
|soft tissue|2/9|
|thyroid|1/2|
|upper aerodigestive|4/22|
|urinary tract|7/29|
|uterus|3/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 244
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 5.39 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='SEPSECS Expression in NALM6 Cells: 5.39'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>