DDX11 [The Human Chemical-Genetic Interaction Map Project]

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======= DDX11 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: DDX11
  * **<color #00a2e8>Official Name</color>**: DEAD/H-box helicase 11
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=1663|1663]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q96FC9|Q96FC9]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=DDX11&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20DDX11|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/601150|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  DEAD box proteins, characterized by the conserved motif Asp-Glu-Ala-Asp (DEAD), are putative RNA helicases. They are implicated in a number of cellular processes involving alteration of RNA secondary structure such as translation initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. Based on their distribution patterns, some members of this family are believed to be involved in embryogenesis, spermatogenesis, and cellular growth and division. This gene encodes a DEAD box protein, which is an enzyme that possesses both ATPase and DNA helicase activities. This gene is a homolog of the yeast CHL1 gene, and may function to maintain chromosome transmission fidelity and genome stability. Alternative splicing results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, Jul 2008]. 
  * **<color #00a2e8>UniProt Summary</color>**:  DNA-dependent ATPase and ATP-dependent DNA helicase that participates in various functions in genomic stability, including DNA replication, DNA repair and heterochromatin organization as well as in ribosomal RNA synthesis (PubMed:10648783, PubMed:21854770, PubMed:23797032, PubMed:26089203, PubMed:26503245). Its double-stranded DNA helicase activity requires either a minimal 5'-single-stranded tail length of approximately 15 nt (flap substrates) or 10 nt length single- stranded gapped DNA substrates of a partial duplex DNA structure for helicase loading and translocation along DNA in a 5' to 3' direction (PubMed:18499658, PubMed:22102414). The helicase activity is capable of displacing duplex regions up to 100 bp, which can be extended up to 500 bp by the replication protein A (RPA) or the cohesion CTF18-replication factor C (Ctf18-RFC) complex activities (PubMed:18499658). Shows also ATPase- and helicase activities on substrates that mimic key DNA intermediates of replication, repair and homologous recombination reactions, including forked duplex, anti-parallel G-quadruplex and three- stranded D-loop DNA molecules (PubMed:22102414, PubMed:26503245). Plays a role in DNA double-strand break (DSB) repair at the DNA replication fork during DNA replication recovery from DNA damage (PubMed:23797032). Recruited with TIMELESS factor upon DNA- replication stress response at DNA replication fork to preserve replication fork progression, and hence ensure DNA replication fidelity (PubMed:26503245). Cooperates also with TIMELESS factor during DNA replication to regulate proper sister chromatid cohesion and mitotic chromosome segregation (PubMed:17105772, PubMed:18499658, PubMed:20124417, PubMed:23116066, PubMed:23797032). Stimulates 5'-single-stranded DNA flap endonuclease activity of FEN1 in an ATP- and helicase-independent manner; and hence it may contribute in Okazaki fragment processing at DNA replication fork during lagging strand DNA synthesis (PubMed:18499658). Its ability to function at DNA replication fork is modulated by its binding to long non-coding RNA (lncRNA) cohesion regulator non-coding RNA DDX11-AS1/CONCR, which is able to increase both DDX11 ATPase activity and binding to DNA replicating regions (PubMed:27477908). Plays also a role in heterochromatin organization (PubMed:21854770). Involved in rRNA transcription activation through binding to active hypomethylated rDNA gene loci by recruiting UBTF and the RNA polymerase Pol I transcriptional machinery (PubMed:26089203). Plays a role in embryonic development and prevention of aneuploidy (By similarity). Involved in melanoma cell proliferation and survival (PubMed:23116066). Associates with chromatin at DNA replication fork regions (PubMed:27477908). Binds to single- and double- stranded DNAs (PubMed:9013641, PubMed:18499658, PubMed:22102414). {ECO:0000250|UniProtKB:Q6AXC6, ECO:0000269|PubMed:10648783, ECO:0000269|PubMed:17105772, ECO:0000269|PubMed:18499658, ECO:0000269|PubMed:20124417, ECO:0000269|PubMed:21854770, ECO:0000269|PubMed:22102414, ECO:0000269|PubMed:23116066, ECO:0000269|PubMed:23797032, ECO:0000269|PubMed:26089203, ECO:0000269|PubMed:26503245, ECO:0000269|PubMed:27477908}.

<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'>
|DEAD 2|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|nucleolar chromatin organization|
|triplex DNA binding|
|mitotic cohesin complex|
|cellular response to bleomycin|
|response to bleomycin|
|positive regulation of endodeoxyribonuclease activity|
|cellular response to cisplatin|
|RNA-dependent ATPase activity|
|positive regulation of deoxyribonuclease activity|
|establishment of sister chromatid cohesion|
|G-quadruplex DNA unwinding|
|response to cisplatin|
|Ctf18 RFC-like complex|
|regulation of endodeoxyribonuclease activity|
|positive regulation of nuclease activity|
|G-quadruplex DNA binding|
|regulation of deoxyribonuclease activity|
|positive regulation of sister chromatid cohesion|
|positive regulation of transcription of nucleolar large rRNA by RNA polymerase I|
|cellular response to hydroxyurea|
|response to hydroxyurea|
|regulation of transcription of nucleolar large rRNA by RNA polymerase I|
|positive regulation of chromatin binding|
|response to antimetabolite|
|positive regulation of transcription by RNA polymerase I|
|regulation of sister chromatid cohesion|
|regulation of nuclease activity|
|regulation of chromatin binding|
|DNA replication origin binding|
|positive regulation of chromosome segregation|
|replication fork processing|
|positive regulation of double-strand break repair|
|regulation of transcription by RNA polymerase I|
|helicase activity|
|DNA-dependent DNA replication maintenance of fidelity|
|4 iron, 4 sulfur cluster binding|
|DNA-dependent ATPase activity|
|single-stranded RNA binding|
|sister chromatid cohesion|
|IRE1-mediated unfolded protein response|
|DNA helicase activity|
|positive regulation of DNA repair|
|regulation of double-strand break repair|
|regulation of sister chromatid segregation|
|response to antineoplastic agent|
|positive regulation of response to DNA damage stimulus|
|double-stranded DNA binding|
|regulation of chromosome segregation|
|negative regulation of protein binding|
|endoplasmic reticulum unfolded protein response|
|single-stranded DNA binding|
|DNA duplex unwinding|
|cellular response to antibiotic|
|DNA geometric change|
|DNA-dependent DNA replication|
|spindle pole|
|regulation of DNA repair|
|cellular response to unfolded protein|
|fibrillar center|
|sister chromatid segregation|
|cellular response to topologically incorrect protein|
|midbody|
|response to unfolded protein|
|negative regulation of binding|
|positive regulation of chromosome organization|
|positive regulation of binding|
|response to topologically incorrect protein|
|positive regulation of DNA metabolic process|
|cellular response to toxic substance|
|DNA replication|
|regulation of response to DNA damage stimulus|
|regulation of protein binding|
|nuclear chromosome segregation|
|cellular response to inorganic substance|
|nuclear chromatin|
|response to endoplasmic reticulum stress|
|chromosome segregation|
|positive regulation of cell cycle process|
|DNA conformation change|
|response to antibiotic|
|cellular response to peptide|
|regulation of chromosome organization|
|regulation of DNA metabolic process|
|positive regulation of cell cycle|
|regulation of binding|
|chromatin binding|
|cellular response to drug|
|response to peptide|
|centrosome|
|response to toxic substance|
|DNA repair|
|response to inorganic substance|
|cellular response to organonitrogen compound|
|positive regulation of organelle organization|
|cellular response to nitrogen compound|
|chromatin organization|
|viral process|
|regulation of cellular response to stress|
|DNA metabolic process|
|regulation of cell cycle process|
|positive regulation of hydrolase activity|
|cellular response to DNA damage stimulus|
|symbiotic process|
|interspecies interaction between organisms|
|nucleolus|
|cell cycle process|
|response to organonitrogen compound|
|response to drug|
|cellular response to oxygen-containing compound|
|chromosome organization|
|response to nitrogen compound|
|negative regulation of molecular function|
|regulation of cell cycle|
|positive regulation of cellular component organization|
|cellular response to endogenous stimulus|
|regulation of hydrolase activity|
|regulation of organelle organization|
|cell cycle|
|positive regulation of catalytic activity|
|DNA binding|
|response to endogenous stimulus|
|regulation of response to stress|
|ATP binding|
|positive regulation of transcription, DNA-templated|
|response to oxygen-containing compound|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|cellular response to stress|
|cellular macromolecule biosynthetic process|
|positive regulation of RNA metabolic process|
|macromolecule biosynthetic process|
|positive regulation of molecular function|
|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:exp147|Resveratrol 16μM R03 exp147]]|-2.13|
|[[:results:exp80|RO-3307 4.7μM R02 exp80]]|-1.88|
|[[:results:exp478|Doxorubicin 0.02μM R08 exp478]]|-1.77|
|[[:results:exp331|A-769662 20μM R07 exp331]]|1.94|
|[[:results:exp278|CVT-10216 0.1μM R06 exp278]]|2.16|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:c:cdk8|CDK8]]|0.41|
|[[:human genes:h:hgc6.3|HGC6.3]]|0.407|
|[[:human genes:p:psme3|PSME3]]|0.403|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 292/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|1/1|
|909776.0|0/1|
|bile duct|10/28|
|blood|10/28|
|bone|10/26|
|breast|19/33|
|central nervous system|32/56|
|cervix|1/4|
|colorectal|6/17|
|esophagus|1/13|
|fibroblast|0/1|
|gastric|9/16|
|kidney|6/21|
|liver|10/20|
|lung|30/75|
|lymphocyte|6/16|
|ovary|10/26|
|pancreas|9/24|
|peripheral nervous system|6/16|
|plasma cell|7/15|
|prostate|0/1|
|skin|9/24|
|soft tissue|3/9|
|thyroid|0/2|
|upper aerodigestive|7/22|
|urinary tract|9/29|
|uterus|2/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 1906
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 8.15 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='DDX11 Expression in NALM6 Cells: 8.15'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>