======= VPS29 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: VPS29
  * **<color #00a2e8>Official Name</color>**: VPS29 retromer complex component
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=51699|51699]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q9UBQ0|Q9UBQ0]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=VPS29&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20VPS29|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/606932|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**: N/A
  * **<color #00a2e8>UniProt Summary</color>**:  Acts as component of the retromer cargo-selective complex (CSC). The CSC is believed to be the core functional component of retromer or respective retromer complex variants acting to prevent missorting of selected transmembrane cargo proteins into the lysosomal degradation pathway. The recruitment of the CSC to the endosomal membrane involves RAB7A and SNX3. The SNX-BAR retromer mediates retrograde transport of cargo proteins from endosomes to the trans-Golgi network (TGN) and is involved in endosome-to-plasma membrane transport for cargo protein recycling. The SNX3-retromer mediates the retrograde endosome-to-TGN transport of WLS distinct from the SNX-BAR retromer pathway. The SNX27-retromer is believed to be involved in endosome-to-plasma membrane trafficking and recycling of a broad spectrum of cargo proteins. The CSC seems to act as recruitment hub for other proteins, such as the WASH complex and TBC1D5. Required to regulate transcytosis of the polymeric immunoglobulin receptor (pIgR-pIgA) (Probable). Involved in GLUT1 endosome-to-plasma membrane trafficking; the function is dependent of association with ANKRD27 (PubMed:24856514). {ECO:0000250|UniProtKB:Q9QZ88, ECO:0000269|PubMed:16737443, ECO:0000269|PubMed:24856514, ECO:0000303|PubMed:15247922, ECO:0000303|PubMed:21725319, ECO:0000303|PubMed:23563491}.

<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'>
|Metallophos 2|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|retromer, cargo-selective complex|
|retromer complex|
|retrograde transport, endosome to plasma membrane|
|endocytic recycling|
|vesicle-mediated transport to the plasma membrane|
|retrograde transport, endosome to Golgi|
|late endosome|
|cytosolic transport|
|endosome membrane|
|endosomal transport|
|early endosome|
|endosome|
|regulation of autophagy|
|cell-cell signaling by wnt|
|Wnt signaling pathway|
|cell surface receptor signaling pathway involved in cell-cell signaling|
|intracellular membrane-bounded organelle|
|viral process|
|symbiotic process|
|interspecies interaction between organisms|
|regulation of cellular catabolic process|
|intracellular protein transport|
|regulation of catabolic process|
|cell-cell signaling|
|protein transport|
|intracellular transport|
|peptide transport|
|amide transport|
|cellular protein localization|
|cellular macromolecule localization|
|establishment of protein localization|
|establishment of localization in cell|
|nitrogen compound transport|
|vesicle-mediated transport|
</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:exp89|Vemurafenib 6.6μM R02 exp89]]|-3.06|
|[[:results:exp454|Bafilomycin-A1 0.009μM R08 exp454]]|-2.84|
|[[:results:exp68|Clomiphene 4.4μM R02 exp68]]|-2.22|
|[[:results:exp400|Senexin-A 25μM R07 exp400]]|-2.17|
|[[:results:exp483|FTY720 3μM R08 exp483]]|-2.16|
|[[:results:exp79|Q15 2.7μM R02 exp79]]|-2.13|
|[[:results:exp470|Chloroquine 32μM R08 exp470]]|-2.1|
|[[:results:exp169|BH1 1μM R04 exp169]]|-1.98|
|[[:results:exp530|Thioridazine 5μM R08 exp530]]|-1.86|
|[[:results:exp344|Chlorpromazine 10μM R07 exp344]]|-1.8|
|[[:results:exp124|GSK343 3μM R03 exp124]]|-1.8|
|[[:results:exp492|iCRT14 30μM R08 exp492]]|-1.75|
|[[:results:exp77|Prochlorperazine 5.2μM R02 exp77]]|-1.75|
|[[:results:exp504|MK2206 4μM R08 exp504]]|-1.74|
|[[:results:exp505|ML-792 0.2μM R08 exp505]]|1.76|
|[[:results:exp419|Tunicamycin 0.04 to 0.075μM  on day4 R07 exp419]]|1.88|
|[[:results:exp499|LY2090314 0.003μM R08 exp499]]|1.91|
|[[:results:exp21|MLN-4924 0.2μM R00 exp21]]|2.23|
|[[:results:exp214|2-Deoxy-D-glucose 800μM R05 exp214]]|2.44|
|[[:results:exp264|Arsenate 40μM R06 exp264]]|2.69|
|[[:results:exp175|3-Bromopyruvate 7μM R04 exp175]]|3.28|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:c:commd3|COMMD3]]|0.605|
|[[:human genes:v:vps35|VPS35]]|0.595|
|[[:human genes:c:ccdc22|CCDC22]]|0.586|
|[[:human genes:a:arpc4|ARPC4]]|0.568|
|[[:human genes:c:commd5|COMMD5]]|0.56|
|[[:human genes:c:commd9|COMMD9]]|0.543|
|[[:human genes:c:commd2|COMMD2]]|0.518|
|[[:human genes:a:arpc2|ARPC2]]|0.511|
|[[:human genes:r:rab7a|RAB7A]]|0.506|
|[[:human genes:a:actr2|ACTR2]]|0.496|
|[[:human genes:c:commd10|COMMD10]]|0.49|
|[[:human genes:c:c16orf62|C16orf62]]|0.484|
|[[:human genes:v:vps26a|VPS26A]]|0.479|
|[[:human genes:a:actr3|ACTR3]]|0.452|
|[[:human genes:c:commd7|COMMD7]]|0.436|
|[[:human genes:k:kiaa0196|KIAA0196]]|0.431|
|[[:human genes:c:ccdc53|CCDC53]]|0.423|
|[[:human genes:c:commd4|COMMD4]]|0.412|
|[[:human genes:k:kiaa1033|KIAA1033]]|0.407|
|[[:human genes:c:ccdc93|CCDC93]]|0.407|
|[[:human genes:c:cnot4|CNOT4]]|0.405|
|[[:human genes:a:ahcyl1|AHCYL1]]|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: 8/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|1/28|
|blood|0/28|
|bone|0/26|
|breast|0/33|
|central nervous system|0/56|
|cervix|0/4|
|colorectal|1/17|
|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|1/29|
|uterus|0/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 1570
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 6.3 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='VPS29 Expression in NALM6 Cells: 6.3'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>