| 词条 | Hfq binding sRNA |
| 释义 |
| Name = isrA Hfq binding RNA | image = RF01385.png | width = | caption = Predicted secondary structure of isrA Hfq binding RNA | Symbol = isrA | AltSymbols = | Rfam = RF01385 | miRBase = | miRBase_family = | RNA_type = gene, sRNA | Tax_domain = Enterobacteriaceae | CAS_number = | EntrezGene = | HGNCid = | OMIM = | PDB = | RefSeq = | Chromosome = | Arm = | Band = | LocusSupplementaryData = }} An Hfq binding sRNA is an sRNA that binds the bacterial RNA binding protein called Hfq. A number of bacterial small RNAs which have been shown to bind to Hfq have been characterised (see list). Many of these RNAs share a similar structure composed of three stem-loops.[1] Several studies have expanded this list, and experimentally validated a total of 64 Hfq binding sRNA in Salmonella Typhimurium.[2][3][4] A transcriptome wide study on Hfq binding sites in Salmonella mapped 126 Hfq binding sites within sRNAs.[5] Genomic SELEX has been used to show that Hfq binding RNAs are enriched in the sequence motif 5'-AAYAAYAA-3'.[6] Genome-wide study identified 40 candidate Hfq-dependent sRNAs in plant pathogen Erwinia amylovora. 12 of them were confirmed by Northern blot.[7] Bacterial Hfq binding sRNAs{{div col|colwidth=22em}}
References1. ^{{cite journal |vauthors=Zhang A, Wassarman KM, Rosenow C, Tjaden BC, Storz G, Gottesman S | title = Global analysis of small RNA and mRNA targets of Hfq | journal = Mol. Microbiol. | volume = 50 | issue = 4 | pages = 1111–24 | year = 2003 | pmid = 14622403 | doi = 10.1046/j.1365-2958.2003.03734.x }} 2. ^{{cite journal |vauthors=Pfeiffer V, Sittka A, Tomer R, Tedin K, Brinkmann V, Vogel J |title=A small non-coding RNA of the invasion gene island (SPI-1) represses outer membrane protein synthesis from the Salmonella core genome |journal=Molecular Microbiology |volume=66 |issue=5 |pages=1174–91 |date=December 2007 |pmid=17971080 |doi=10.1111/j.1365-2958.2007.05991.x |url=}} 3. ^{{cite journal |vauthors=Sittka A, Lucchini S, Papenfort K, etal |title=Deep Sequencing Analysis of Small Noncoding RNA and mRNA Targets of the Global Post-Transcriptional Regulator, Hfq |journal=PLOS Genetics |volume=4 |issue=8 |pages=e1000163 |year=2008 |pmid=18725932 |pmc=2515195 |doi=10.1371/journal.pgen.1000163 |url= |editor1-last=Burkholder |editor1-first=William F.}} 4. ^1 {{cite journal |vauthors=Padalon-Brauch G, Hershberg R, Elgrably-Weiss M, etal |title=Small RNAs encoded within genetic islands of Salmonella typhimurium show host-induced expression and role in virulence |journal=Nucleic Acids Research |volume=36 |issue=6 |pages=1913–27 |date=April 2008 |pmid=18267966 |pmc=2330248 |doi=10.1093/nar/gkn050 |url=}} 5. ^{{cite journal |vauthors=Holmqvist E, Wright PR, Li L, Bischler T, Barquist L, Reinhardt R, Backofen R, Vogel J |title=Global RNA recognition patterns of post-transcriptional regulators Hfq and CsrA revealed by UV crosslinking in vivo. |journal=EMBO J |year=2016 |pmid=27044921 |doi=10.15252/embj.201593360 |volume=35 |pages=991–1011|pmc=5207318 }} 6. ^{{cite journal |vauthors=Lorenz C, Gesell T, Zimmermann B, Schoeberl U, Bilusic I, Rajkowitsch L, Waldsich C, von Haeseler A, Schroeder R |title=Genomic SELEX for Hfq-binding RNAs identifies genomic aptamers predominantly in antisense transcripts |journal=Nucleic Acids Res |volume= 38|issue= 11|pages= 3794–808|year=2010 |pmid=20348540 |pmc=2887942 |doi=10.1093/nar/gkq032}} 7. ^{{Cite journal|last=Zeng|first=Quan|last2=Sundin|first2=George W.|date=2014-01-01|title=Genome-wide identification of Hfq-regulated small RNAs in the fire blight pathogen Erwinia amylovora discovered small RNAs with virulence regulatory function|journal=BMC Genomics|volume=15|pages=414|doi=10.1186/1471-2164-15-414|issn=1471-2164|pmc=4070566|pmid=24885615}} Further reading{{refbegin}}
| last1 = De Lay | first1 = N. | last2 = Schu | first2 = D. J. | last3 = Gottesman | first3 = S. | doi = 10.1074/jbc.R112.441386 | title = Bacterial Small RNA-based Negative Regulation: Hfq and Its Accomplices | journal = Journal of Biological Chemistry | volume = 288 | issue = 12 | pages = 7996–8003 | year = 2013 | pmid = 23362267 | pmc =3605619 }}
| last1 = Peng | first1 = Y. | last2 = Soper | first2 = T. J. | last3 = Woodson | first3 = S. A. | doi = 10.1016/j.jmb.2013.08.026 | title = Positional effects of AAN motifs in rpoS regulation by sRNAs and Hfq | journal = Journal of Molecular Biology | year = 2013 | pmid = 24051417 | pmc =3947347 | volume=426 | issue=2 | pages=275–85 }}{{refend}} External links
| name = hidden | title = Gallery of secondary structure images | titlestyle = background:#e7dcc3 | state = autocollapse | list1 = {{Gallery | lines=4 | Image:RF01385.png|isrA Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01385. | Image:RF01386.png|isrB Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01386. | Image:RF01387.png|isrC Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01387. | Image:RF01388.png|isrD Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01388. | Image:RF01389.png|isrF Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01389. | Image:RF01390.png|isrG Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01390. | Image:RF01391.png|isrH Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01391. | Image:RF01392.png|isrI Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01392. | Image:RF01393.png|isrJ Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01393. | Image:RF01394.png|isrK Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01394. | Image:RF01395.png|isrL Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01395. | Image:RF01396.png|isrN Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01396. | Image:RF01397.png|isrO Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01397. | Image:RF01398.png|isrP Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01398. | Image:RF01399.png|isrQ Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01399. | Image:IstR_SScons.png|istR Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01400. | Image:RF01401.png|rseX Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01401. | Image:RF01402.png|STnc150 Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01402. | Image:RF01403.png|STnc290 Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01403. | Image:RF01404.png|STnc440 Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01404. | Image:RF01405.png|STnc490k Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01405. | Image:RF01406.png|STnc500 Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01406. | Image:RF01407.png|STnc560 Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01407. | Image:RF01408.png|sraL Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01408. | Image:RF01409.png|STnc250 Hfq binding RNA: Predicted secondary structure taken from the Rfam database. Family RF01409. |}} }}{{molecular-cell-biology-stub}} 1 : Non-coding RNA |
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