PLOD1 [The Human Chemical-Genetic Interaction Map Project]

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======= PLOD1 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: PLOD1
  * **<color #00a2e8>Official Name</color>**: procollagen-lysine,2-oxoglutarate 5-dioxygenase 1
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=5351|5351]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q02809|Q02809]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=PLOD1&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20PLOD1|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/153454|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  Lysyl hydroxylase is a membrane-bound homodimeric protein localized to the cisternae of the endoplasmic reticulum. The enzyme (cofactors iron and ascorbate) catalyzes the hydroxylation of lysyl residues in collagen-like peptides. The resultant hydroxylysyl groups are attachment sites for carbohydrates in collagen and thus are critical for the stability of intermolecular crosslinks. Some patients with Ehlers-Danlos syndrome type VI have deficiencies in lysyl hydroxylase activity. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2015]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Part of a complex composed of PLOD1, P3H3 and P3H4 that catalyzes hydroxylation of lysine residues in collagen alpha chains and is required for normal assembly and cross-linkling of collagen fibrils (By similarity). Forms hydroxylysine residues in -Xaa-Lys-Gly- sequences in collagens (PubMed:8621606, PubMed:10686424, PubMed:15854030). These hydroxylysines serve as sites of attachment for carbohydrate units and are essential for the stability of the intermolecular collagen cross-links (Probable). {ECO:0000250|UniProtKB:Q9R0E2, ECO:0000269|PubMed:10686424, ECO:0000269|PubMed:15854030, ECO:0000269|PubMed:8621606, ECO:0000305}.

<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'>
|2OG-FeII Oxy|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|procollagen-lysine 5-dioxygenase activity|
|hydroxylysine metabolic process|
|hydroxylysine biosynthetic process|
|procollagen glucosyltransferase activity|
|catalytic complex|
|peptidyl-lysine hydroxylation|
|rough endoplasmic reticulum membrane|
|L-ascorbic acid binding|
|aspartate family amino acid biosynthetic process|
|protein hydroxylation|
|cellular modified amino acid biosynthetic process|
|collagen fibril organization|
|aspartate family amino acid metabolic process|
|collagen metabolic process|
|alpha-amino acid biosynthetic process|
|cellular amino acid biosynthetic process|
|protein O-linked glycosylation|
|iron ion binding|
|cellular modified amino acid metabolic process|
|alpha-amino acid metabolic process|
|protein glycosylation|
|macromolecule glycosylation|
|glycosylation|
|carboxylic acid biosynthetic process|
|organic acid biosynthetic process|
|cellular amino acid metabolic process|
|peptidyl-lysine modification|
|glycoprotein biosynthetic process|
|extracellular matrix organization|
|response to hypoxia|
|response to decreased oxygen levels|
|response to oxygen levels|
|glycoprotein metabolic process|
|extracellular structure organization|
|epidermis development|
|supramolecular fiber organization|
|small molecule biosynthetic process|
|carbohydrate derivative biosynthetic process|
|protein homodimerization activity|
|peptidyl-amino acid modification|
|carboxylic acid metabolic process|
|endoplasmic reticulum membrane|
|oxidation-reduction process|
|oxoacid metabolic process|
|organic acid metabolic process|
|carbohydrate derivative metabolic process|
|response to abiotic stimulus|
|organonitrogen compound biosynthetic process|
|cellular macromolecule biosynthetic process|
|small molecule metabolic process|
|tissue development|
|macromolecule biosynthetic process|
|protein-containing complex subunit organization|
</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:exp148|SB202190 10μM R03 exp148]]|-1.78|
|[[:results:exp400|Senexin-A 25μM R07 exp400]]|-1.72|
|[[:results:exp483|FTY720 3μM R08 exp483]]|1.73|
</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: 0/726
^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|0/22|
|urinary tract|0/29|
|uterus|0/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 7322
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 6.65 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='PLOD1 Expression in NALM6 Cells: 6.65'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>