Abstract：
:The mammalian target of rapamycin (mTOR) is a critical regulator of cell growth, integrating multiple signalling cues and pathways. Key among the downstream activities of mTOR is the control of the protein synthesis machinery. This is achieved, in part, via the co-ordinated regulation of mRNAs that contain a terminal oligopyrimidine tract (TOP) at their 5'ends, although the mechanisms by which this occurs downstream of mTOR signalling are still unclear. We used RNA-binding protein (RBP) capture to identify changes in the protein-RNA interaction landscape following mTOR inhibition. Upon mTOR inhibition, the binding of LARP1 to a number of mRNAs, including TOP-containing mRNAs, increased. Importantly, non-TOP-containing mRNAs bound by LARP1 are in a translationally-repressed state, even under control conditions. The mRNA interactome of the LARP1-associated protein PABPC1 was found to have a high degree of overlap with that of LARP1 and our data show that PABPC1 is required for the association of LARP1 with its specific mRNA targets. Finally, we demonstrate that mRNAs, including those encoding proteins critical for cell growth and survival, are translationally repressed when bound by both LARP1 and PABPC1.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Smith EM,Benbahouche NEH,Morris K,Wilczynska A,Gillen S,Schmidt T,Meijer HA,Jukes-Jones R,Cain K,Jones C,Stoneley M,Waldron JA,Bell C,Fonseca BD,Blagden S,Willis AE,Bushell Mdoi
10.1093/nar/gkaa1189subject
Has Abstractpub_date
2021-01-11 00:00:00pages
458-478issue
1eissn
0305-1048issn
1362-4962pii
6041013journal_volume
49pub_type
杂志文章abstract：:The basal transcription factor TFE enhances transcription initiation by catalysing DNA strand-separation, a process that varies with temperature and ionic strength. Canonical TFE forms a heterodimeric complex whose integrity and function critically relies on a cubane iron-sulphur cluster residing in the TFEβ subunit. ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkx1302
更新日期：2018-03-16 00:00:00
abstract：:We have previously shown that hedamycin, a GC-rich DNA-binding antitumor agent, downregulates survivin transcription (Wu et al. (2005) Molecular mechanism of inhibition of survivin transcription by the GC-rich sequence selective DNA-binding antitumor agent, hedamycin: evidence of survivin downregulation associated wit...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkm149
更新日期：2007-01-01 00:00:00
abstract：:DNA synthesis of broad host-range plasmid R1162 is initiated from two positions, flanking a large (40 bp stem, 40 bp loop) inverted repeat. Each start-point is located within a highly conserved, but oppositely oriented, 10 base-pair sequence. Synthesis from the two positions converges within the intervening inverted r...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/15.20.8319
更新日期：1987-10-26 00:00:00
abstract：:Several restriction endonuclease fragments isolated from highly repetitive satellite DNA of the chromatin eliminating nematode Ascaris lumbricoides var. suum have been cloned. Each type of restriction fragment corresponds to a different variant of the same related ancestral sequence. These variants differ by small del...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/10.23.7493
更新日期：1982-12-11 00:00:00
abstract：:Details of polynucleotide flexibility may be probed through a combination of semiempirical potential energy calculations and statistical mechanical analyses. The pseudorotational motions of the furanose and the long-range correlated rotations of the chain backbone are described briefly here. ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/10.3.777
更新日期：1982-02-11 00:00:00
abstract：:Unoxidized crystalline silicon, characterized by high purity, high homogeneity, sturdiness and an atomically flat surface, offers many advantages for the construction of electronic miniaturized biosensor arrays upon attachment of biomolecules (DNA, proteins or small organic compounds). This allows to study the inciden...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gnj034
更新日期：2006-02-28 00:00:00
abstract：:The compilation of 5S rRNA and 5S rRNA gene nucleotide sequences as of 30 September 1996, contains a total of 1661 primary structures of 5S rRNAs or their genes, which is an increase of 928 new sequence entries over the last compilation. It covers sequences from 54 archaea, 449 eubacteria, 34 plastids, nine mitochondr...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/25.1.96
更新日期：1997-01-01 00:00:00
abstract：:We developed an integrated method to identify aptamers with only 10 fixed nucleotides through ligation and removal of primer binding sites within the systematic evolution of ligands by exponential enrichment (SELEX) process. This Tailored-SELEX approach was validated by identifying a Spiegelmer ('mirror-image aptamer'...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gng130
更新日期：2003-11-01 00:00:00
abstract：:The Histone Database (HDB) is an annotated and searchable collection of all full-length sequences and structures of histone and non-histone proteins containing the histone fold motif. These sequences are both eukaryotic and archaeal in origin. Several new histone fold-containing proteins have been identified, includin...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/28.1.320
更新日期：2000-01-01 00:00:00
abstract：:The direction of replication of DNA within replicons of Physarum polycephalum was studied by pulse-labelling with 5-bromouracil-deoxyriboside (BrdUrd) and 3H-adenosine deoxyriboside (dAdo), followed by ultraviolet- (UV) -photolysis and analysis of molecular weights of single strand DNA fragments on alkaline sucrose gr...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/5.3.713
更新日期：1978-03-01 00:00:00
abstract：:Smarcal1 is a SWI/SNF-family protein with an ATPase domain involved in DNA-annealing activities and a binding site for the RPA single-strand-DNA-binding protein. Although the role played by Smarcal1 in the maintenance of replication forks has been established, it remains unknown whether Smarcal1 contributes to genomic...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv621
更新日期：2015-07-27 00:00:00
abstract：:The hybridization of complementary strands of DNA is the underlying principle of all microarray-based techniques for the analysis of DNA variation. In this paper, we study how probe immobilization at surfaces, specifically probe density, influences the kinetics of target capture using surface plasmon resonance (SPR) s...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/29.24.5163
更新日期：2001-12-15 00:00:00
abstract：:The complete nucleotide sequence of the Escherichia coli recB gene which encodes a subunit of the ATP-dependent DNase, Exonuclease V, has been determined. The proposed coding region for the RecB protein is 3543 nucleotides long and would encode a polypeptide of 1180 amino acids with a calculated molecular weight of 13...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/14.21.8573
更新日期：1986-11-11 00:00:00
abstract：:DNA polymerase lambda (pol lambda) is a member of the X family DNA polymerases and is endowed with multiple enzymatic activities. In this work we investigated the in vitro miscoding properties of full-length, human pol lambda either in the absence or in the presence of the human auxiliary proteins proliferating cell n...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl032
更新日期：2006-03-06 00:00:00
abstract：:DAP-like kinase (Dlk, also termed ZIP kinase) is a leucine zipper-containing serine/threonine-specific protein kinase with as yet unknown biological function(s). Interaction partners so far identified are either transcription factors or proteins that can support or counteract apoptosis. Thus, Dlk might be involved in ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/30.6.1408
更新日期：2002-03-15 00:00:00
abstract：:The tight-binding I12-X86 lac repressor binds to non-operator DNA in a sequence-specific fashion. Using the DNA of the E. coli I gene we have investigated these sequence-specific interactions and compared them to the operator binding of wild-type repressor. The specific, non-operator DNA interactions are sensitive to ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/8.3.487
更新日期：1980-02-11 00:00:00
abstract：:Extreme overloading of HPLC columns with sample can create a condition of binding site saturation causing competition and displacement among solutes during column elution. This has been termed solute-displacement chromatography (SD-HPLC). We present an example of this phenomenon for the preparative fractionation and p...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/21.12.2913
更新日期：1993-06-25 00:00:00
abstract：:The recent outbreak of COVID-19 has generated an enormous amount of Big Data. To date, the COVID-19 Open Research Dataset (CORD-19), lists ∼130,000 articles from the WHO COVID-19 database, PubMed Central, medRxiv, and bioRxiv, as collected by Semantic Scholar. According to LitCovid (11 August 2020), ∼40,300 COVID19-re...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkaa969
更新日期：2021-01-08 00:00:00
abstract：:We describe a simple procedure for photolithographic patterning of streptavidin on silicon substrates. Long wavelength UV (365 nm) light was used to direct the covalent attachment of photoactivatable biotin onto silylated silicon wafers. Fluorescently labeled streptavidin was found to bind only in areas exposed to the...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/28.8.e33
更新日期：2000-04-15 00:00:00
abstract：:Experimental evidence indicates that about 60% of miRNA-binding activity does not follow the canonical rule about the seed matching between miRNA and target mRNAs, but rather a non-canonical miRNA targeting activity outside the seed or with a seed-like motifs. Here, we propose a new unbiased method to identify canonic...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkx007
更新日期：2017-05-19 00:00:00
abstract：:The behaviour of highly purified bacterial expressed rat O6-methylguanine-DNA methyltransferase (MGMT) towards the repair of CGCm6GAGCTCGCG and CGCe6GAGCTCGCG (km6G/ke6G = 1.45, where k is the second order repair rate constant determined, m6G and e6G are O6-methyl and O6-ethylguanine) is similar to that of E. coli 39k...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/22.9.1613
更新日期：1994-05-11 00:00:00
abstract：:RNA fragments from phage fr covering the complete or part of the replicase cistron initiation region have been used as templates in the formation of a ribosomal initiation complex in vitro. The results so obtained together with our earlier findings in a similar approach applied to fragments of the structurally related...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/10.23.7763
更新日期：1982-12-11 00:00:00
abstract：:The ever growing number of completely sequenced prokaryotic genomes facilitates cross-species comparisons by genomic annotation algorithms. This paper introduces a new probabilistic framework for comparative genomic analysis and demonstrates its utility in the context of improving the accuracy of prokaryotic gene star...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkf423
更新日期：2002-07-15 00:00:00
abstract：:In phytohemagglutinin stimulated human lymphocytes the time relationship was determined between induction of the parameters mentioned. The results indicate that the induction occurred in a specific sequence. Thus, a simultaneous increase in the activity of DNA polymerase and thymidinekinase occurred after 15 h of incu...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/4.8.2713
更新日期：1977-08-01 00:00:00
abstract：:When the function of origins of replication in yeast was compromised by placing ARS sequences downstream of strong promoters, ARS activity might have been affected either by transcription or by an altered chromatin configuration induced by the construct. To distinguish between these possibilities, derivatives of the y...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/22.19.3904
更新日期：1994-09-25 00:00:00
abstract：:We have developed an improved method for photofootprinting in vivo which utilizes the thermostable DNA polymerase from T. aquaticus (Taq) in a primer extension assay. UV light is used to introduce photoproducts into the genomic DNA of intact yeast cells. The photoproducts are then detected and mapped at the nucleotide...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/17.1.171
更新日期：1989-01-11 00:00:00
abstract：:The large terminase subunit is a central component of the genome packaging motor from tailed bacteriophages and herpes viruses. This two-domain enzyme has an N-terminal ATPase activity that fuels DNA translocation during packaging and a C-terminal nuclease activity required for initiation and termination of the packag...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gks974
更新日期：2013-01-07 00:00:00
abstract：:MHCPEP is a curated database comprising over 6000 peptide sequences known to bind MHC molecules. Entries are compiled from published reports as well as from direct submissions of experimental data. Each entry contains peptide sequence, MHC specificity and when available, experimental method, observed activity, binding...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/24.1.242
更新日期：1996-01-01 00:00:00
abstract：:Regulation of mRNA translation is an important mechanism determining the level of expression of proteins in eukaryotic cells. Translation is most commonly initiated by cap-dependent scanning, but many eukaryotic mRNAs contain internal ribosome entry segments (IRESs), providing an alternative means of initiation capabl...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkp623
更新日期：2009-09-01 00:00:00
abstract：:In many organisms (e.g., gram-positive eubacteria) Gin-tRNA is not formed by direct glutaminylation of tRNAGln but by a specific transamidation of Glu-tRNAGln. We wondered whether a similar transamidation pathway also operates in the formation of Asn-tRNA in these organisms. Therefore we tested in S-100 preparations o...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/24.14.2648
更新日期：1996-07-15 00:00:00
