======= MBD4 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: MBD4
  * **<color #00a2e8>Official Name</color>**: methyl-CpG binding domain 4, DNA glycosylase
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=8930|8930]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/O95243|O95243]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=MBD4&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20MBD4|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/603574|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  The protein encoded by this gene is a member of a family of nuclear proteins related by the presence of a methyl-CpG binding domain (MBD). These proteins are capable of binding specifically to methylated DNA, and some members can also repress transcription from methylated gene promoters. This protein contains an MBD domain at the N-terminus that functions both in binding to methylated DNA and in protein interactions and a C-terminal mismatch-specific glycosylase domain that is involved in DNA repair. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Jan 2013]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Mismatch-specific DNA N-glycosylase involved in DNA repair. Has thymine glycosylase activity and is specific for G:T mismatches within methylated and unmethylated CpG sites. Can also remove uracil or 5-fluorouracil in G:U mismatches. Has no lyase activity. Was first identified as methyl-CpG-binding protein. {ECO:0000269|PubMed:10097147, ECO:0000269|PubMed:10930409}.

<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'>
|MBD|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|pyrimidine-specific mismatch base pair DNA N-glycosylase activity|
|satellite DNA binding|
|depyrimidination|
|endodeoxyribonuclease activity|
|base-excision repair, AP site formation|
|DNA N-glycosylase activity|
|pyrimidine deoxyribonucleotide catabolic process|
|pyrimidine nucleotide catabolic process|
|pyrimidine deoxyribonucleotide metabolic process|
|deoxyribonucleotide catabolic process|
|deoxyribose phosphate catabolic process|
|2-deoxyribonucleotide metabolic process|
|deoxyribose phosphate metabolic process|
|deoxyribonucleotide metabolic process|
|base-excision repair|
|pyrimidine-containing compound catabolic process|
|pyrimidine nucleotide metabolic process|
|nucleotide catabolic process|
|nucleoside phosphate catabolic process|
|DNA modification|
|nucleobase-containing small molecule biosynthetic process|
|pyrimidine-containing compound metabolic process|
|chromatin|
|organophosphate catabolic process|
|response to estradiol|
|carbohydrate derivative catabolic process|
|nucleobase-containing compound catabolic process|
|nuclear speck|
|heterocycle catabolic process|
|cellular nitrogen compound catabolic process|
|response to radiation|
|aromatic compound catabolic process|
|nucleotide metabolic process|
|nucleoside phosphate metabolic process|
|organic cyclic compound catabolic process|
|DNA repair|
|nucleobase-containing small molecule metabolic process|
|small molecule biosynthetic process|
|DNA metabolic process|
|cellular response to DNA damage stimulus|
|response to lipid|
|organophosphate metabolic process|
|response to hormone|
|response to organic cyclic compound|
|carbohydrate derivative metabolic process|
|organonitrogen compound catabolic process|
|nucleobase-containing compound biosynthetic process|
|response to abiotic stimulus|
|heterocycle biosynthetic process|
|aromatic compound biosynthetic process|
|organic cyclic compound biosynthetic process|
|DNA binding|
|response to endogenous stimulus|
|response to oxygen-containing compound|
|cellular nitrogen compound biosynthetic process|
|cellular response to stress|
|small molecule metabolic process|
|organic substance catabolic process|
|cellular catabolic process|
</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:exp169|BH1 1μM R04 exp169]]|-2.02|
|[[:results:exp421|VHL-ligand-1 20μM R07 exp421]]|-1.85|
|[[:results:exp487|Hinokiflavone 12μM R08 exp487]]|-1.74|
|[[:results:exp273|Cisplatin 0.35μM R06 exp273]]|1.72|
|[[:results:exp264|Arsenate 40μM R06 exp264]]|1.76|
|[[:results:exp333|All-trans-Retinoic-Acid 8μM R07 exp333]]|1.84|
</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>**: 16392
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 6.23 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='MBD4 Expression in NALM6 Cells: 6.23'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>