======= ALKBH1 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: ALKBH1
  * **<color #00a2e8>Official Name</color>**: alkB homolog 1, histone H2A dioxygenase
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=8846|8846]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q13686|Q13686]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=ALKBH1&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20ALKBH1|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/605345|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**: N/A
  * **<color #00a2e8>UniProt Summary</color>**:  Dioxygenase that acts as on nucleic acids, such as DNA and tRNA (PubMed:18603530, PubMed:27745969, PubMed:27497299). Requires molecular oxygen, alpha-ketoglutarate and iron (PubMed:18603530, PubMed:27497299). A number of activities have been described for this dioxygenase, but recent results suggest that it mainly acts as on tRNAs and mediates their demethylation or oxidation depending on the context and subcellular compartment (PubMed:27745969, PubMed:27497299). Mainly acts as a tRNA demethylase by removing N(1)-methyladenine from various tRNAs, with a preference for N(1)-methyladenine at position 58 (m1A58) present on a stem loop structure of tRNAs (PubMed:27745969). Acts as a regulator of translation initiation and elongation in response to glucose deprivation: regulates both translation initiation, by mediating demethylation of tRNA(Met), and translation elongation, N(1)-methyladenine-containing tRNAs being preferentially recruited to polysomes to promote translation elongation (PubMed:27745969). In mitochondrion, specifically interacts with mt-tRNA(Met) and mediates oxidation of mt-tRNA(Met) methylated at cytosine(34) to form 5-formylcytosine (f(5)c) at this position (PubMed:27497299). mt-tRNA(Met) containing the f(5)c modification at the wobble position enables recognition of the AUA codon in addition to the AUG codon, expanding codon recognition in mitochondrial translation (PubMed:27497299). Specifically demethylates DNA methylated on the 6th position of adenine (N(6)- methyladenosine) DNA. N(6)-methyladenosine (m6A) DNA is present at some L1 elements in embryonic stem cells and probably promotes their silencing (By similarity). Also able to repair alkylated single-stranded DNA and RNA containing 3-methylcytosine by oxidative demethylation, but with low activity (PubMed:18603530). Also has DNA lyase activity and introduces double-stranded breaks at abasic sites: cleaves both single-stranded DNA and double- stranded DNA at abasic sites, with the greatest activity towards double-stranded DNA with two abasic sites (PubMed:19959401). DNA lyase activity does not require alpha-ketboglutarate and iron and leads to the formation of an irreversible covalent protein-DNA adduct with the 5' DNA product (PubMed:19959401, PubMed:23577621). DNA lyase activity is not required during base excision repair and class switch recombination of the immunoglobulin heavy chain during B lymphocyte activation. May play a role in placental trophoblast lineage differentiation (By similarity). {ECO:0000250|UniProtKB:P0CB42, ECO:0000269|PubMed:18603530, ECO:0000269|PubMed:19959401, ECO:0000269|PubMed:23577621, ECO:0000269|PubMed:27497299, ECO:0000269|PubMed:27745969}.

<button type='default' 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'>
No Pfam Domain information is available for this gene.
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|tRNA demethylation|
|RNA repair|
|1-ethyladenine demethylase activity|
|oxidative DNA demethylase activity|
|tRNA wobble cytosine modification|
|tRNA demethylase activity|
|methylcytosine dioxygenase activity|
|oxidative DNA demethylation|
|oxidative RNA demethylation|
|DNA dealkylation involved in DNA repair|
|class I DNA-(apurinic or apyrimidinic site) endonuclease activity|
|2-oxoglutarate-dependent dioxygenase activity|
|DNA demethylation|
|regulation of translational elongation|
|oxidative demethylation|
|tRNA wobble base modification|
|dioxygenase activity|
|ferrous iron binding|
|DNA dealkylation|
|regulation of mitochondrial translation|
|regulation of mitochondrial gene expression|
|nuclear euchromatin|
|chemoattractant activity|
|positive chemotaxis|
|tRNA binding|
|demethylation|
|DNA methylation or demethylation|
|regulation of translational initiation|
|tRNA modification|
|DNA modification|
|neuron migration|
|tRNA processing|
|negative regulation of neuron apoptotic process|
|placenta development|
|RNA modification|
|tRNA metabolic process|
|negative regulation of neuron death|
|regulation of neuron apoptotic process|
|regulation of neuron death|
|regulation of translation|
|in utero embryonic development|
|ncRNA processing|
|developmental growth|
|growth|
|regulation of cellular amide metabolic process|
|reproductive structure development|
|reproductive system development|
|ncRNA metabolic process|
|DNA repair|
|posttranscriptional regulation of gene expression|
|chemotaxis|
|taxis|
|chordate embryonic development|
|embryo development ending in birth or egg hatching|
|neuron projection development|
|developmental process involved in reproduction|
|DNA metabolic process|
|cellular response to DNA damage stimulus|
|neuron development|
|RNA processing|
|negative regulation of apoptotic process|
|negative regulation of programmed cell death|
|cell migration|
|oxidation-reduction process|
|embryo development|
|negative regulation of cell death|
|neuron differentiation|
|localization of cell|
|cell motility|
|plasma membrane bounded cell projection organization|
|cell projection organization|
|mitochondrion|
|locomotion|
|reproductive process|
|reproduction|
|generation of neurons|
|regulation of apoptotic process|
|movement of cell or subcellular component|
|regulation of programmed cell death|
|neurogenesis|
|cell development|
|RNA metabolic process|
|regulation of cell death|
|cellular response to stress|
|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:exp165|RO-3306 3 to 4μM on day4 R04 exp165]]|-2.07|
|[[:results:exp170|Metformin 100 to 150μM on day4 R04 exp170]]|-1.9|
|[[:results:exp241|QNZ 0.01μM R05 exp241]]|1.7|
|[[:results:exp525|Sulforaphane 9μM R08 exp525]]|1.72|
|[[:results:exp346|CoCl2 18μM R07 exp346]]|1.83|
|[[:results:exp435|JQ1 0.8μM R08 exp435]]|1.99|
|[[:results:exp513|ONC212 0.15μM R08 exp513]]|1.99|
|[[:results:exp537|WNT3A 44ng/ml R08 exp537]]|2|
|[[:results:exp65|Mubritinib 0.2μM R02 exp65]]|2.07|
|[[:results:exp25|Oligomycin-A 2μM R00 exp25]]|2.15|
|[[:results:exp467|CAY10603 0.55μM R08 exp467]]|2.18|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:c:c12orf65|C12orf65]]|0.465|
|[[:human genes:g:gtpbp10|GTPBP10]]|0.417|
|[[:human genes:n:ndufaf7|NDUFAF7]]|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: 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>**: 2764
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 3.86 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='ALKBH1 Expression in NALM6 Cells: 3.86'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>