SMG5 [The Human Chemical-Genetic Interaction Map Project]

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======= SMG5 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: SMG5
  * **<color #00a2e8>Official Name</color>**: SMG5 nonsense mediated mRNA decay factor
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=23381|23381]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q9UPR3|Q9UPR3]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=SMG5&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20SMG5|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/610962|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**: N/A
  * **<color #00a2e8>UniProt Summary</color>**:  Plays a role in nonsense-mediated mRNA decay. Does not have RNase activity by itself. Promotes dephosphorylation of UPF1. Together with SMG7 is thought to provide a link to the mRNA degradation machinery involving exonucleolytic pathways, and to serve as an adapter for UPF1 to protein phosphatase 2A (PP2A), thereby triggering UPF1 dephosphorylation. Necessary for TERT activity. {ECO:0000269|PubMed:17053788}.

<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'>
|EST1|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|telomerase holoenzyme complex|
|telomere maintenance via telomerase|
|telomerase RNA binding|
|telomeric DNA binding|
|telomere maintenance via telomere lengthening|
|protein phosphatase 2A binding|
|RNA-dependent DNA biosynthetic process|
|regulation of telomere maintenance via telomerase|
|regulation of telomere maintenance via telomere lengthening|
|regulation of telomere maintenance|
|telomere maintenance|
|telomere organization|
|mRNA-containing ribonucleoprotein complex export from nucleus|
|mRNA export from nucleus|
|DNA biosynthetic process|
|histone deacetylase binding|
|regulation of DNA biosynthetic process|
|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|
|ribonucleoprotein complex export from nucleus|
|ribonucleoprotein complex localization|
|RNA export from nucleus|
|protein export from nucleus|
|mRNA transport|
|nuclear export|
|RNA transport|
|nucleic acid transport|
|establishment of RNA localization|
|nuclear-transcribed mRNA catabolic process|
|regulation of dephosphorylation|
|RNA localization|
|mRNA catabolic process|
|nucleobase-containing compound transport|
|RNA catabolic process|
|protein-containing complex localization|
|nucleocytoplasmic transport|
|nuclear transport|
|ubiquitin protein ligase binding|
|anatomical structure homeostasis|
|regulation of chromosome organization|
|regulation of DNA metabolic process|
|nucleobase-containing compound catabolic process|
|heterocycle catabolic process|
|cellular nitrogen compound catabolic process|
|aromatic compound catabolic process|
|organic cyclic compound catabolic process|
|mRNA metabolic process|
|DNA metabolic process|
|cellular macromolecule catabolic process|
|intracellular protein transport|
|macromolecule catabolic process|
|chromosome organization|
|nucleobase-containing compound biosynthetic process|
|heterocycle biosynthetic process|
|aromatic compound biosynthetic process|
|regulation of organelle organization|
|organic cyclic compound biosynthetic process|
|protein transport|
|intracellular transport|
|peptide transport|
|amide transport|
|cellular protein localization|
|cellular macromolecule localization|
|establishment of protein localization|
|cellular nitrogen compound biosynthetic process|
|homeostatic process|
|RNA metabolic process|
|cellular macromolecule biosynthetic process|
|negative regulation of gene expression|
|macromolecule biosynthetic process|
|organic substance catabolic process|
|regulation of phosphate metabolic process|
|regulation of phosphorus metabolic process|
|cellular catabolic process|
|establishment of localization in cell|
|nitrogen compound transport|
|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:exp488|Hippuristanol 0.12μM R08 exp488]]|-2.77|
|[[:results:exp489|Hippuristanol 0.12μM R08 exp489 no dilution day6]]|-2.77|
|[[:results:exp7|Bortezomib 0.05μM R00 exp7]]|-2.72|
|[[:results:exp355|Dinaciclib 0.007μM R07 exp355]]|-2.49|
|[[:results:exp440|Aphidicolin 0.4μM R08 exp440]]|-2.32|
|[[:results:exp93|DABN racemic mixture R03 exp93]]|-2.22|
|[[:results:exp343|Centrinone 0.5μM R07 exp343]]|-2.1|
|[[:results:exp445|∆-9-Tetrahydrocannabinol 30μM R08 exp445]]|-2|
|[[:results:exp456|Benzoate 20000μM R08 exp456]]|-1.99|
|[[:results:exp237|NN-Diethyl-meta-toluamide 100μM R05 exp237]]|-1.93|
|[[:results:exp534|Trientine 500μM R08 exp534]]|-1.91|
|[[:results:exp98|BI-6727 0.04μM R03 exp98]]|-1.88|
|[[:results:exp2|5-Fluorouracil 20μM R00 exp2]]|-1.87|
|[[:results:exp476|Dihydrosphingosine 8μM R08 exp476]]|-1.86|
|[[:results:exp502|Milciclib 2μM R08 exp502]]|-1.81|
|[[:results:exp66|BI-D1870 3.15μM R02 exp66]]|-1.75|
|[[:results:exp533|TNF-alpha 44ng/ml R08 exp533]]|-1.75|
|[[:results:exp521|Salinomycin 3.5μM R08 exp521]]|-1.74|
|[[:results:exp474|CR131-b 0.005μM R08 exp474]]|-1.72|
|[[:results:exp517|Quercetin 20μM R08 exp517]]|-1.71|
|[[:results:exp529|Thimerosal 0.85μM R08 exp529]]|-1.71|
|[[:results:exp282|Fluvastatin 2.2μM R06 exp282]]|1.71|
|[[:results:exp247|UM0130462 0.025 to 0.035μM day4 R05 exp247]]|1.73|
|[[:results:exp226|Cerivastatin 0.15μM R05 exp226]]|1.74|
|[[:results:exp406|Thalidomide 20μM R07 exp406]]|1.74|
|[[:results:exp190|Vincristine 0.0005μM R04 exp190]]|1.75|
|[[:results:exp148|SB202190 10μM R03 exp148]]|1.8|
|[[:results:exp341|BRD2 inhibitor II 20μM R07 exp341]]|1.82|
|[[:results:exp97|BI-6727 0.0125μM R03 exp97]]|1.84|
|[[:results:exp326|CCT251545 20μM R07 exp326]]|1.85|
|[[:results:exp270|Campthothecin 0.001μM R06 exp270]]|1.98|
|[[:results:exp139|Nicotinamide Riboside 100μM R03 exp139]]|2.1|
|[[:results:exp31|Rifampicin 1μM R00 exp31]]|2.11|
|[[:results:exp21|MLN-4924 0.2μM R00 exp21]]|2.22|
|[[:results:exp185|L-BMAA 500 to 750μM on day4 R04 exp185]]|2.32|
|[[:results:exp165|RO-3306 3 to 4μM on day4 R04 exp165]]|2.59|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:b:bcl2l1|BCL2L1]]|0.548|
|[[:human genes:z:zfand5|ZFAND5]]|0.51|
|[[:human genes:a:atp13a1|ATP13A1]]|0.494|
|[[:human genes:p:psmd1|PSMD1]]|0.493|
|[[:human genes:s:smg7|SMG7]]|0.493|
|[[:human genes:s:smg1|SMG1]]|0.492|
|[[:human genes:o:ogfr|OGFR]]|0.448|
|[[:human genes:p:psma6|PSMA6]]|0.442|
|[[:human genes:p:psma1|PSMA1]]|0.437|
|[[:human genes:p:psmb1|PSMB1]]|0.429|
|[[:human genes:m:mt1e|MT1E]]|0.425|
|[[:human genes:p:pan2|PAN2]]|0.418|
|[[:human genes:w:wdr43|WDR43]]|0.413|
|[[:human genes:m:med29|MED29]]|0.412|
|[[:human genes:s:scaf1|SCAF1]]|0.411|
|[[:human genes:p:psmb4|PSMB4]]|0.409|
|[[:human genes:r:rfc1|RFC1]]|0.406|
|[[:human genes:t:tbc1d3g|TBC1D3G]]|0.405|
|[[:human genes:d:ddtl|DDTL]]|0.404|
|[[:human genes:r:rpsa|RPSA]]|0.4|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 407/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|1/1|
|bile duct|9/28|
|blood|19/28|
|bone|16/26|
|breast|20/33|
|central nervous system|29/56|
|cervix|2/4|
|colorectal|15/17|
|esophagus|4/13|
|fibroblast|0/1|
|gastric|8/16|
|kidney|9/21|
|liver|11/20|
|lung|43/75|
|lymphocyte|11/16|
|ovary|17/26|
|pancreas|13/24|
|peripheral nervous system|8/16|
|plasma cell|10/15|
|prostate|0/1|
|skin|13/24|
|soft tissue|7/9|
|thyroid|0/2|
|upper aerodigestive|11/22|
|urinary tract|13/29|
|uterus|3/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 280
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 7.48 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='SMG5 Expression in NALM6 Cells: 7.48'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>