======= PNKP =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: PNKP
  * **<color #00a2e8>Official Name</color>**: polynucleotide kinase 3'-phosphatase
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=11284|11284]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q96T60|Q96T60]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=PNKP&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20PNKP|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/605610|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This locus represents a gene involved in DNA repair. In response to ionizing radiation or oxidative damage, the protein encoded by this locus catalyzes 5' phosphorylation and 3' dephosphorylation of nucleic acids. Mutations at this locus have been associated with microcephaly, seizures, and developmental delay.[provided by RefSeq, Sep 2010]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Plays a key role in the repair of DNA damage, functioning as part of both the non-homologous end-joining (NHEJ) and base excision repair (BER) pathways. Through its two catalytic activities, PNK ensures that DNA termini are compatible with extension and ligation by either removing 3'-phosphates from, or by phosphorylating 5'-hydroxyl groups on, the ribose sugar of the DNA backbone. {ECO:0000269|PubMed:10446192}.

<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'>
|PNK3P|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|DNA 3 dephosphorylation involved in DNA repair|
|polynucleotide 3-phosphatase activity|
|polynucleotide 3 dephosphorylation|
|nucleotide-excision repair, DNA damage removal|
|DNA excision|
|DNA 3 dephosphorylation|
|purine nucleotide binding|
|ATP-dependent polydeoxyribonucleotide 5-hydroxyl-kinase activity|
|DNA dephosphorylation|
|negative regulation of protein ADP-ribosylation|
|nucleoside monophosphate kinase activity|
|regulation of protein ADP-ribosylation|
|nucleoside monophosphate phosphorylation|
|positive regulation of telomere capping|
|regulation of telomere capping|
|positive regulation of telomere maintenance via telomerase|
|positive regulation of telomerase activity|
|positive regulation of telomere maintenance via telomere lengthening|
|endonuclease activity|
|DNA damage response, detection of DNA damage|
|positive regulation of telomere maintenance|
|regulation of telomerase activity|
|regulation of telomere maintenance via telomerase|
|damaged DNA binding|
|regulation of telomere maintenance via telomere lengthening|
|nucleotide phosphorylation|
|positive regulation of DNA biosynthetic process|
|nucleoside monophosphate metabolic process|
|regulation of telomere maintenance|
|double-stranded DNA binding|
|nucleotide-excision repair|
|regulation of DNA biosynthetic process|
|DNA-dependent DNA replication|
|positive regulation of chromosome organization|
|positive regulation of DNA metabolic process|
|DNA replication|
|nucleotide biosynthetic process|
|nucleoside phosphate biosynthetic process|
|nucleic acid phosphodiester bond hydrolysis|
|dephosphorylation|
|regulation of chromosome organization|
|regulation of DNA metabolic process|
|response to oxidative stress|
|response to radiation|
|nucleotide metabolic process|
|nucleoside phosphate metabolic process|
|DNA repair|
|organophosphate biosynthetic process|
|nucleobase-containing small molecule metabolic process|
|negative regulation of protein modification process|
|positive regulation of organelle organization|
|positive regulation of transferase activity|
|detection of stimulus|
|DNA metabolic process|
|cellular response to DNA damage stimulus|
|nucleolus|
|organophosphate metabolic process|
|regulation of transferase activity|
|negative regulation of cellular protein metabolic process|
|nucleobase-containing compound biosynthetic process|
|negative regulation of protein metabolic process|
|response to abiotic stimulus|
|heterocycle biosynthetic process|
|aromatic compound biosynthetic process|
|positive regulation of cellular component organization|
|mitochondrion|
|phosphorylation|
|regulation of organelle organization|
|organic cyclic compound biosynthetic process|
|positive regulation of catalytic activity|
|ATP binding|
|cellular nitrogen compound biosynthetic process|
|cellular response to stress|
|cellular macromolecule biosynthetic process|
|small molecule metabolic process|
|macromolecule biosynthetic process|
|positive regulation of molecular function|
|regulation of protein modification process|
|positive regulation of nucleobase-containing compound metabolic process|
|positive regulation of macromolecule biosynthetic process|
|positive regulation of cellular biosynthetic process|
|membrane|
|positive regulation of biosynthetic process|
</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:exp99|NFN1 0.4μM R03 exp99]]|-2.91|
|[[:results:exp520|Rucaparib 6.5μM R08 exp520]]|-2.74|
|[[:results:exp128|GSK591 2.6μM R03 exp128]]|-2.49|
|[[:results:exp122|Golgicide-A 4μM R03 exp122]]|-2.19|
|[[:results:exp189|Temozolomide 200μM R04 exp189]]|-2.16|
|[[:results:exp48|Mubritinib 0.2μM R01 exp48]]|-2.14|
|[[:results:exp180|Dynasore 10μM R04 exp180]]|-2.05|
|[[:results:exp139|Nicotinamide Riboside 100μM R03 exp139]]|-2.03|
|[[:results:exp142|OICR-9429 10μM R03 exp142]]|-1.93|
|[[:results:exp507|Monensin 0.3μM R08 exp507]]|-1.86|
|[[:results:exp512|Olaparib 4μM R08 exp512]]|-1.83|
|[[:results:exp299|Talazoparib 0.006μM R06 exp299]]|-1.79|
|[[:results:exp130|JQ1 0.01μM R03 exp130]]|-1.75|
|[[:results:exp275|Citral 75μM R06 exp275]]|1.8|
|[[:results:exp437|Ethanol 0.003 R08 exp437]]|1.86|
|[[:results:exp495|IWR1 50μM R08 exp495]]|1.88|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:t:tktl1|TKTL1]]|0.401|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 61/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|0/28|
|blood|0/28|
|bone|4/26|
|breast|3/33|
|central nervous system|8/56|
|cervix|0/4|
|colorectal|1/17|
|esophagus|0/13|
|fibroblast|0/1|
|gastric|0/16|
|kidney|1/21|
|liver|3/20|
|lung|3/75|
|lymphocyte|3/16|
|ovary|1/26|
|pancreas|2/24|
|peripheral nervous system|2/16|
|plasma cell|0/15|
|prostate|0/1|
|skin|2/24|
|soft tissue|2/9|
|thyroid|0/2|
|upper aerodigestive|0/22|
|urinary tract|3/29|
|uterus|2/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 963
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 5.01 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='PNKP Expression in NALM6 Cells: 5.01'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>