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tisdag 12 mars 2024

Snail1 proteiinin säätymisestä proteosomissa E3 ubikitiiniigaasien osuus, Hypoxian ja TWIST1:n osuus.

 

. 2010 Feb 5;285(6):3794-3805.
doi: 10.1074/jbc.M109.065995. Epub 2009 Dec 2.

The hypoxia-controlled FBXL14 ubiquitin ligase targets SNAIL1 for proteasome degradation

Affiliations
Free PMC article

Abstract

The transcription factor SNAIL1 is a master regulator of epithelial to mesenchymal transition. 

SNAIL1 is a very unstable protein, and its levels are regulated by the E3 ubiquitin ligase beta-TrCP1 that interacts with SNAIL1 upon its phosphorylation by GSK-3beta. Here we show that SNAIL1 polyubiquitylation and degradation may occur in conditions precluding SNAIL1 phosphorylation by GSK-3beta, suggesting that additional E3 ligases participate in the control of SNAIL1 protein stability.

 In particular, we demonstrate that the F-box E3 ubiquitin ligase FBXl14 interacts with SNAIL1 and promotes its ubiquitylation and proteasome degradation independently of phosphorylation by GSK-3beta. In vivo, inhibition of FBXl14 using short hairpin RNA stabilizes both ectopically expressed and endogenous SNAIL1. Moreover, the expression of FBXl14 is potently down-regulated during hypoxia, a condition that increases the levels of SNAIL1 protein but not SNAIL1 mRNA.

 FBXL14 mRNA is decreased in tumors with a high expression of two proteins up-regulated in hypoxia, carbonic anhydrase 9 and TWIST1. In addition, 

Twist1 small interfering RNA prevents hypoxia-induced Fbxl14 down-regulation and SNAIL1 stabilization in NMuMG cells. Altogether, these results demonstrate the existence of an alternative mechanism controlling SNAIL1 protein levels relevant for the induction of SNAIL1 during hypoxia.

Substrate-recognition component of some SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin-protein ligase complexes. The SCF(FBXL14) complex acts by mediating ubiquitination and subsequent degradation of SNAI1. ( FXL14_HUMAN,Q8N1E6 )  

  • TWIST1 7p21.1

 This gene is hypermethylated and overexpressed in multiple human cancers, and the encoded protein promotes tumor cell invasion and metastasis, as well as metastatic recurrence. 

Acts as a transcriptional regulator. Inhibits myogenesis by sequestrating E proteins, inhibiting trans-activation by MEF2, and inhibiting DNA-binding by MYOD1 through physical interaction. This interaction probably involves the basic domains of both proteins. Also represses expression of pro-inflammatory cytokines such as TNFA and IL1B. Regulates cranial suture patterning and fusion. Activates transcription as a heterodimer with E proteins. Regulates gene expression differentially, depending on dimer composition. Homodimers induce expression of FGFR2 and POSTN while heterodimers repress FGFR2 and POSTN expression and induce THBS1 expression. Heterodimerization is also required for osteoblast differentiation. Represses the activity of the circadian transcriptional activator: NPAS2-BMAL1 heterodimer (By similarity). ( TWST1_HUMAN,Q15672 )

Snail, Slug ja Smad-interaktioprotein1 metastaattisessa ovariaali ja rintasyövässä taudin aggressiivisuudessa (2005). SNAIL perhe 2022 .

 2005

 https://acsjournals.onlinelibrary.wiley.com/doi/full/10.1002/cncr.20946

 2021  ( SNAI1 polymorfismin osuus )

https://www.sciencedirect.com/science/article/abs/pii/S2452014421002648


Volume 24, September 2021, 101279

The effects of SNAI1 rs6125849 gene polymorphism on metastasis and survival in colorectal cancer: Preliminary results from Turkish subjects
, , , , , ,
Highlights

•SNAI1 involves in many carcinogenic processes and has been considered as a new therapeutic target.


  • Since SNAI1 is crucial in carcinogenesis, the effects of SNAI1 gene variations on oncogenic processes have become important in recent years.

  • In the present study, we investigated the effects of SNAI1 rs6125849 G>A variation on several features of colorectal cancer (CRC).

  • According to our results, rs6125849 variation might have an effect on metastasis and patients survival but not CRC risk and primary tumor location.

  • Further in vitro and in vivo studies are necessary to validate our results and understand the function of rs6125849 polymorphism.

  • 2022         (SNAI sinkkisormiproteiiniperheen jäsenistä . Onko näistä jotain löytöä  mihin perustaa  syöpälääkitystä?)
ORIGINAL RESEARCH article

Analysis of the Effect of SNAI Family in Breast Cancer and Immune Cell

We comprehensively analyzed the roles of SNAIs in cancer. We used Oncomine and TCGA data to analyze pan-cancer SNAI transcript levels. By analyzing UALCAN data, we found correlations between SNAI transcript levels and breast cancer patient characteristics. Kaplan–Meier plotter analysis revealed that SNAI1 and SNAI2 have a bad prognosis, whereas SNAI3 is the opposite. Analysis using the cBio Cancer Genomics Portal revealed alterations in SNAIs in breast cancer subtypes.

 The results showed that SNAI protein levels were correlated with the expression of several immunomodulators and chemokines. Through analysis of PharmacoDB data, we identified antitumor drugs related to SNAI family members and analyzed their IC50 effects on various breast cancer cell lines. In summary, our study revealed that SNAI family members regulate different immune cells infiltrations by gene copy number, mutation, methylation, and expression level. SNAI3 and SNIA1/2 have opposite regulatory effects. They all play a key role in tumor development and immune cell infiltration, and can provide a potential target for drug therapy.

 (Huom: kudos-hypoxia-tekijän  osuuden  heijastus tähän  SNAI-proteiinien  säätymiseen) 


SNAI3 (SMUC, ZNF293) tekee interaktion SMAD 2 ja SMAD 4 proteiinien kannsa ja nämä taas verkostoituvat HIF1A ja   histoiasetylaasien HDAcs suuntaan. 

https://string-db.org/cgi/network?taskId=b6WUo05jUSr1&sessionId=bbL7sWYOUvpk

Gene Families for SNAI3 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for SNAI3 Gene

InterPro:
Blocks:
  • C2H2-type zinc finger signature
SNAI3_HUMAN :
Domain:
  • Binds E-box via C2H2-type zinc finger domain.
Family:
  • Belongs to the snail C2H2-type zinc-finger protein family.

Molecular function for SNAI3 Gene according to UniProtKB/Swiss-Prot

Function:
  • Seems to inhibit myoblast differentiation.
    Transcriptional repressor of E-box-dependent transactivation of downstream myogenic bHLHs genes.
    Binds preferentially to the canonical E-box sequences 5'-CAGGTG-3' and 5'-CACCTG-3' (By similarity). SNAI3_HUMAN,Q3KNW1

måndag 11 mars 2024

Neurofibromin 1 gene. NF1 Geeni on tuttu opiskeluajoilta nimellä von Recklinghausen taudista lähinnä ( ihomuutoksia). Osuus syövässä on uudempi löytö.

 https://pubmed.ncbi.nlm.nih.gov/37627552/h

  • GeneCards Symbol: NF1 2
  • Neurofibromin 1 2 3 5
  • Neurofibromatosis-Related Protein NF-1 3 4
  • Neurofibromin 3 4
  • Von Recklinghausen Disease 2
  • Neurofibromatosis 1 3
  • Neurofibromatosis 2
  • Watson Disease 2
  • NFNS 3
  • VRNF 3
  • WSS 3

External Ids for NF1 Gene

ttps://www.genecards.org/cgi-bin/carddisp.pl?gene=NF1&keywords=NF

Tässä GeneCards  linkissä on kovasti asiaa. 

Tässä otan esiin *prolaktiinisignaloinnin kartan Geneards lähteestä  ja koetan tehdä muistiinpanot omaan vihkoon sen verkostosta tänään.  11.3. 2024.

NCBI Gene Summary for NF1 Gene
  • This gene product appears to function as a negative regulator of the ras signal transduction pathway. Mutations in this gene have been linked to neurofibromatosis type 1, juvenile myelomonocytic leukemia and Watson syndrome. The mRNA for this gene is subject to RNA editing (CGA>UGA->Arg1306Term) resulting in premature translation termination. Alternatively spliced transcript variants encoding different isoforms have also been described for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for NF1 Gene
 NF1 (Neurofibromin 1) is a Protein Coding gene. Diseases associated with NF1 include Neurofibromatosis-Noonan Syndrome and Neurofibromatosis, Type I. Among its related pathways are RAF/MAP kinase cascade and *Prolactin Signaling. Gene Ontology (GO) annotations related to this gene include binding and phosphatidylcholine binding. An important paralog of this gene is SYNGAP1.
UniProtKB/Swiss-Prot Summary for NF1 Gene
Stimulates the GTPase activity of Ras. NF1 shows greater affinity for Ras GAP, but lower specific activity. May be a regulator of Ras activity. ( NF1_HUMAN,P21359 )

 https://pathcards.genecards.org/card/prolactin_signaling

torsdag 7 mars 2024

SIMTRONS, simtronit


Biogenesis of mammalian microRNAs by a non-canonical processing pathway.
Havens MA, Reich AA, Duelli DM, Hastings ML. Nucleic Acids Res. 2012 May;40(10):4626-40. doi: 10.1093/nar/gks026. Epub 2012 Jan 23. PMID: 22270084 Free PMC article.
However, simtron biogenesis was reduced by expression of a dominant negative form of Drosha. Simtrons are bound by Drosha and processed in vitro in a Drosha-dependent manner. Both simtrons and mirtrons function in silencing of target transcripts and are found in the …

AGOTRONS, agotronit

 


The agotrons: Gene regulators or Argonaute protectors?
Stagsted LV, Daugaard I, Hansen TB. Bioessays. 2017 Apr;39(4). doi: 10.1002/bies.201600239. Epub 2017 Mar 7. PMID: 28266707 Review.
Agotrons are found in most mammals and associate with Ago as 100 nucleotide (nt) long RNA species. Here, we speculate on the functional and biological relevance of agotrons: (i) agotrons could serve as non-promiscuous miRNA-like regulators with reduced off-ta …
Detecting Agotrons in Ago CLIPseq Data.
Hansen TB. Methods Mol Biol. 2018;1823:221-232. doi: 10.1007/978-1-4939-8624-8_17. PMID: 29959685
We recently identified a novel class of gene regulators, the agotrons. Agotrons derive from short introns and associate with Argonaute (Ago) proteins much similar to miRNAs. ...As a class, agotrons are conserved in mammals, and despite the non-canonical bioge …
Biogenesis and Function of Ago-Associated RNAs.
Daugaard I, Hansen TB. Trends Genet. 2017 Mar;33(3):208-219. doi: 10.1016/j.tig.2017.01.003. Epub 2017 Feb 4. PMID: 28174021 Review.
However, more exotic miRNA-like species that bypass particular steps of the canonical miRNA biogenesis pathway continue to emerge, with one of the most recent additions being the agotrons, which escape both Drosha/DGCR8- and Dicer-processing. We review here the current kno …
Argonaute-associated short introns are a novel class of gene regulators.
Hansen TB, Venø MT, Jensen TI, Schaefer A, Damgaard CK, Kjems J. Nat Commun. 2016 May 13;7:11538. doi: 10.1038/ncomms11538. PMID: 27173734 Free PMC article.
Some agotrons are completely conserved in mammalian species, suggesting that they are functionally important. Furthermore, we demonstrate that the agotrons are capable of repressing mRNAs with seed-matching target sequences in the 3'-UTR. ...

MIRTRONS, mirtronit

 https://pubmed.ncbi.nlm.nih.gov/34155810/

Y RNA

 https://www.mdpi.com/2072-6694/12/5/1238