HMGB3 [The Human Chemical-Genetic Interaction Map Project]

This page is read only. You can view the source, but not change it. Ask your administrator if you think this is wrong.
======= HMGB3 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: HMGB3
  * **<color #00a2e8>Official Name</color>**: high mobility group box 3
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=3149|3149]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/O15347|O15347]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=HMGB3&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20HMGB3|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/300193|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene encodes a member of a family of proteins containing one or more high mobility group DNA-binding motifs. The encoded protein plays an important role in maintaining stem cell populations, and may be aberrantly expressed in tumor cells. A mutation in this gene was associated with microphthalmia, syndromic 13. There are numerous pseudogenes of this gene on multiple chromosomes. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2014]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Multifunctional protein with various roles in different cellular compartments. May act in a redox sensitive manner. Associates with chromatin and binds DNA with a preference to non- canonical DNA structures such as single-stranded DNA. Can bent DNA and enhance DNA flexibility by looping thus providing a mechanism to promote activities on various gene promoters (By similarity). Proposed to be involved in the innate immune response to nucleic acids by acting as a cytoplasmic promiscuous immunogenic DNA/RNA sensor (By similarity). Negatively regulates B-cell and myeloid cell differentiation. In hematopoietic stem cells may regulate the balance between self-renewal and differentiation. Involved in negative regulation of canonical Wnt signaling (By similarity). {ECO:0000250|UniProtKB:O54879, ECO:0000250|UniProtKB:P09429, ECO:0000250|UniProtKB:P40618}.

<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'>
|HMG box|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|negative regulation of B cell differentiation|
|four-way junction DNA binding|
|DNA binding, bending|
|regulation of B cell differentiation|
|negative regulation of B cell activation|
|negative regulation of lymphocyte differentiation|
|negative regulation of myeloid cell differentiation|
|negative regulation of leukocyte differentiation|
|double-stranded DNA binding|
|DNA geometric change|
|negative regulation of hemopoiesis|
|negative regulation of lymphocyte activation|
|chromatin remodeling|
|regulation of lymphocyte differentiation|
|negative regulation of leukocyte activation|
|negative regulation of cell activation|
|regulation of B cell activation|
|DNA recombination|
|regulation of myeloid cell differentiation|
|nuclear chromatin|
|regulation of leukocyte differentiation|
|DNA conformation change|
|transcription factor binding|
|positive regulation of innate immune response|
|positive regulation of response to biotic stimulus|
|negative regulation of immune system process|
|regulation of hemopoiesis|
|regulation of innate immune response|
|positive regulation of defense response|
|positive regulation of multi-organism process|
|regulation of lymphocyte activation|
|regulation of response to biotic stimulus|
|positive regulation of response to external stimulus|
|regulation of leukocyte activation|
|regulation of cell activation|
|chromatin organization|
|negative regulation of cell differentiation|
|DNA metabolic process|
|regulation of defense response|
|innate immune response|
|regulation of multi-organism process|
|positive regulation of immune response|
|negative regulation of developmental process|
|defense response to other organism|
|chromosome organization|
|regulation of response to external stimulus|
|regulation of immune response|
|positive regulation of immune system process|
|negative regulation of multicellular organismal process|
|positive regulation of transcription by RNA polymerase II|
|response to other organism|
|response to external biotic stimulus|
|response to biotic stimulus|
|defense response|
|RNA binding|
|regulation of response to stress|
|positive regulation of transcription, DNA-templated|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|regulation of immune system process|
|positive regulation of RNA metabolic process|
|regulation of cell differentiation|
|immune response|
|positive regulation of nucleobase-containing compound metabolic process|
|positive regulation of macromolecule biosynthetic process|
|positive regulation of cellular biosynthetic process|
|positive regulation of gene expression|
|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:exp228|Demecolcine 0.03μM R05 exp228]]|-2.12|
|[[:results:exp512|Olaparib 4μM R08 exp512]]|-1.97|
|[[:results:exp65|Mubritinib 0.2μM R02 exp65]]|-1.91|
|[[:results:exp292|Menadione 5μM R06 exp292]]|-1.89|
|[[:results:exp179|Combretastatin A4 0.002 to 0.003μM day4 R04 exp179]]|1.7|
|[[:results:exp136|MS094 2μM R03 exp136]]|1.94|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:h:hgc6.3|HGC6.3]]|0.513|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 0/683
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|0/28|
|blood|0/26|
|bone|0/25|
|breast|0/30|
|central nervous system|0/49|
|cervix|0/4|
|colorectal|0/17|
|esophagus|0/11|
|fibroblast|0/1|
|gastric|0/14|
|kidney|0/18|
|liver|0/19|
|lung|0/72|
|lymphocyte|0/14|
|ovary|0/25|
|pancreas|0/22|
|peripheral nervous system|0/15|
|plasma cell|0/12|
|prostate|0/1|
|skin|0/20|
|soft tissue|0/7|
|thyroid|0/2|
|upper aerodigestive|0/22|
|urinary tract|0/28|
|uterus|0/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 13140
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 6.61 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='HMGB3 Expression in NALM6 Cells: 6.61'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>