PHGDH [The Human Chemical-Genetic Interaction Map Project]

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======= PHGDH =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: PHGDH
  * **<color #00a2e8>Official Name</color>**: phosphoglycerate dehydrogenase
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=26227|26227]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/O43175|O43175]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=PHGDH&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20PHGDH|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/606879|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene encodes the enzyme which is involved in the early steps of L-serine synthesis in animal cells. L-serine is required for D-serine and other amino acid synthesis. The enzyme requires NAD/NADH as a cofactor and forms homotetramers for activity. Mutations in this gene have been found in a family with congenital microcephaly, psychomotor retardation and other symptoms. Multiple alternatively spliced transcript variants have been found, however the full-length nature of most are not known. [provided by RefSeq, Aug 2011]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Catalyzes the reversible oxidation of 3-phospho-D- glycerate to 3-phosphonooxypyruvate, the first step of the phosphorylated L-serine biosynthesis pathway. Also catalyzes the reversible oxidation of 2-hydroxyglutarate to 2-oxoglutarate and the reversible oxidation of (S)-malate to oxaloacetate. {ECO:0000269|PubMed:11751922, ECO:0000269|PubMed:25406093}.

<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'>
|2-Hacid dh C|
|2-Hacid dh|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|phosphoglycerate dehydrogenase activity|
|L-malate dehydrogenase activity|
|gamma-aminobutyric acid metabolic process|
|threonine metabolic process|
|L-serine biosynthetic process|
|alkanesulfonate metabolic process|
|taurine metabolic process|
|G1 to G0 transition|
|L-serine metabolic process|
|serine family amino acid biosynthetic process|
|glycine metabolic process|
|glutamine metabolic process|
|NAD binding|
|serine family amino acid metabolic process|
|aspartate family amino acid metabolic process|
|alpha-amino acid biosynthetic process|
|glutamine family amino acid metabolic process|
|electron transfer activity|
|cellular amino acid biosynthetic process|
|neurotransmitter metabolic process|
|glial cell development|
|spinal cord development|
|xenobiotic metabolic process|
|neural tube development|
|glial cell differentiation|
|electron transport chain|
|cellular response to xenobiotic stimulus|
|alpha-amino acid metabolic process|
|gliogenesis|
|response to xenobiotic stimulus|
|carboxylic acid biosynthetic process|
|organic acid biosynthetic process|
|cellular amino acid metabolic process|
|regulation of neurotransmitter levels|
|sulfur compound metabolic process|
|generation of precursor metabolites and energy|
|drug metabolic process|
|monocarboxylic acid metabolic process|
|small molecule biosynthetic process|
|chordate embryonic development|
|embryo development ending in birth or egg hatching|
|neuron projection development|
|brain development|
|head development|
|neuron development|
|tube development|
|carboxylic acid metabolic process|
|oxidation-reduction process|
|embryo development|
|central nervous system development|
|cell cycle process|
|oxoacid metabolic process|
|neuron differentiation|
|organic acid metabolic process|
|epithelium development|
|plasma membrane bounded cell projection organization|
|cell projection organization|
|cell cycle|
|organonitrogen compound biosynthetic process|
|generation of neurons|
|neurogenesis|
|cell development|
|small molecule metabolic process|
|tissue development|
</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:exp48|Mubritinib 0.2μM R01 exp48]]|-1.88|
|[[:results:exp218|A-395 10μM R05 exp218]]|-1.71|
|[[:results:exp450|Artemisinin 50μM R08 exp450]]|1.75|
</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: 1/726
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|0/28|
|blood|0/28|
|bone|0/25|
|breast|0/33|
|central nervous system|0/56|
|cervix|0/4|
|colorectal|0/17|
|esophagus|0/13|
|fibroblast|0/1|
|gastric|0/15|
|kidney|0/21|
|liver|0/20|
|lung|0/75|
|lymphocyte|0/14|
|ovary|0/26|
|pancreas|0/24|
|peripheral nervous system|0/16|
|plasma cell|0/15|
|prostate|0/1|
|skin|0/24|
|soft tissue|0/7|
|thyroid|0/2|
|upper aerodigestive|1/22|
|urinary tract|0/29|
|uterus|0/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 9212
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 7.49 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='PHGDH Expression in NALM6 Cells: 7.49'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>