Conformational dynamics of the human propeller telomeric DNA quadruplex on a microsecond time scale.

abstract：:Non-coding RNA regulatory elements are important for viral replication, making them promising targets for therapeutic intervention. However, regulatory RNA is challenging to detect and characterise using classical structure-function assays. Here, we present in cell Mutational Interference Mapping Experiment (in cell M...

journal_title：Nucleic acids research

authors： Smyth RP,Smith MR,Jousset AC,Despons L,Laumond G,Decoville T,Cattenoz P,Moog C,Jossinet F,Mougel M,Paillart JC,von Kleist M,Marquet R

更新日期：2018-05-18 00:00:00

abstract：:We have demonstrated that the DNA sequence between two triplex-forming polypurine.polypyrimidine (Pu.Py) tracts was protected from DNA modifying enzymes upon formation of triplex DNA structures with an oligodeoxyribonucleotide in which two triplex-forming Pu or Py tracts were placed at the termini (triplex-bridge form...

journal_title：Nucleic acids research

authors： Kiyama R,Oishi M

更新日期：1995-02-11 00:00:00

abstract：:Drosophila tissue culture cells have been important in the study of homologous promoters and more recently in the study of mammalian transcriptional factors such as CTF and SP1 which bind and stimulate transcription from transfected genes. In this paper we show that a Drosophila melanogaster haploid cell line (1182-4)...

journal_title：Nucleic acids research

authors： Saunders SE,Rawls JM,Wardle CJ,Burke JF

更新日期：1989-08-11 00:00:00

abstract：:Programmed -1 ribosomal frameshifting is employed in the expression of a number of viral and cellular genes. In this process, the ribosome slips backwards by a single nucleotide and continues translation of an overlapping reading frame, generating a fusion protein. Frameshifting signals comprise a heptanucleotide slip...

journal_title：Nucleic acids research

authors： Lin Z,Gilbert RJ,Brierley I

更新日期：2012-09-01 00:00:00

abstract：:G-quadruplexes play various roles in multiple biological processes, which can be positive when a G4 is involved in the regulation of gene expression or detrimental when the folding of a stable G4 impairs DNA replication promoting genome instability. This duality interrogates the significance of their presence within g...

journal_title：Nucleic acids research

authors： Puig Lombardi E,Holmes A,Verga D,Teulade-Fichou MP,Nicolas A,Londoño-Vallejo A

更新日期：2019-07-09 00:00:00

abstract：:The multi-protein complex WRAD, formed by WDR5, RbBP5, Ash2L and Dpy30, binds to the MLL SET domain to stabilize the catalytically active conformation required for histone H3K4 methylation. In addition, the WRAD complex contributes to the targeting of the activated complex to specific sites on chromatin. RbBP5 is cent...

journal_title：Nucleic acids research

authors： Mittal A,Hobor F,Zhang Y,Martin SR,Gamblin SJ,Ramos A,Wilson JR

更新日期：2018-04-20 00:00:00

abstract：:The secondary structures of the 5'-untranslated region (5'-UTR) of five different tymoviruses have been determined by structure probing, computer prediction and sequence comparison. Despite large sequence differences, there are remarkable similarities in the secondary structure. In all viruses two or four hairpins are...

journal_title：Nucleic acids research

authors： Hellendoorn K,Michiels PJ,Buitenhuis R,Pleij CW

更新日期：1996-12-15 00:00:00

abstract：:We have modeled local DNA sequence parameters to search for DNA architectural motifs involved in transcription regulation and promotion within the Xenopus laevis ribosomal gene promoter and the intergenic spacer (IGS) sequences. The IGS was found to be shaped into distinct topological domains. First, intrinsic bends s...

journal_title：Nucleic acids research

authors： Roux-Rouquie M,Marilley M

更新日期：2000-09-15 00:00:00

abstract：:In vivo footprinting experiments, augmented with gel shift and transfection analyses suggest that activation of the CYP1A1 gene by aryl hydrocarbons may be a multicomponent process. During the first 30 minutes of exposure to aryl hydrocarbon carcinogens and environmental contaminants, in vivo footprints appear at nine...

journal_title：Nucleic acids research

authors： Robertson RW,Zhang L,Pasco DS,Fagan JB

更新日期：1994-05-11 00:00:00

abstract：:Repression of cellular reprogramming in germ cells is critical to maintaining cell fate and fertility. When germ cells mis-express somatic genes they can be directly converted into other cell types, resulting in loss of totipotency and reproductive potential. Identifying the molecular mechanisms that coordinate these ...

journal_title：Nucleic acids research

authors： Rogers AK,Phillips CM

更新日期：2020-05-07 00:00:00

abstract：:Primase synthesizes decaribonucleotides for priming of lagging and possibly leading strand synthesis at a replication fork. The sites of initiation by purified mouse primase were shown to be highly specific within the SV40 origin of replication. This study further examines the role of the 27-bp inverted repeat in the ...

journal_title：Nucleic acids research

authors： Tseng BY,Prussak CE

更新日期：1989-03-11 00:00:00

abstract：:In neural stem cells (NSCs), the balance between stem cell maintenance and neuronal differentiation depends on cell-fate determinants such as TRIM32. Previously, we have shown that TRIM32 associates with the RNA-induced silencing complex and increases the activity of microRNAs such as Let-7a. However, the exact mechan...

journal_title：Nucleic acids research

authors： Nicklas S,Okawa S,Hillje AL,González-Cano L,Del Sol A,Schwamborn JC

更新日期：2015-03-11 00:00:00

abstract：:An 11 S ribonucleoprotein particle was isolated from maize endosperm and shown to be functionally and structurally equivalent to the mammalian signal recognition particle. However, unlike animal cells which apparently contain a single 7 SL RNA species, maize endosperm contains a heterogeneous population of 7 SL RNA. T...

journal_title：Nucleic acids research

authors： Campos N,Palau J,Zwieb C

更新日期：1989-02-25 00:00:00

abstract：:The abundance and cell cycle dependent expression of the mRNA for human nonhistone protein HMG-17 were studied in synchronized HeLa cells. Slot blot analysis indicates that the HMG-17 mRNA is a very abundant message, significantly more so than histone or actin mRNA. RNA prepared from tissue culture cells contains high...

journal_title：Nucleic acids research

authors： Bustin M,Soares N,Landsman D,Srikantha T,Collins JM

更新日期：1987-04-24 00:00:00

abstract：:The pattern of preferential DNA repair of UV-induced pyrimidine dimers was studied in repair-deficient Chinese hamster ovary (CHO) cells transfected with the human excision repair gene, ERCC-1. Repair efficiency was measured in the active dihydrofolate reductase (DHFR) gene and in its flanking, non-transcribed sequenc...

journal_title：Nucleic acids research

authors： Bohr VA,Chu EH,van Duin M,Hanawalt PC,Okumoto DS

更新日期：1988-08-11 00:00:00

abstract：:In DNA of the dinoflagellate Crypthecodinium cohnii, 38% of the thymine is replaced by the modified base 5-hydroxymethyluracil, and approximately 3% of the cytosine is replaced by 5-methylcytosine. Both of the modified bases are non-randomly distributed in the DNA. Determinations of 3' nearest neighbors show that HOMe...

journal_title：Nucleic acids research

authors： Steele RE,Rae PM

更新日期：1980-10-24 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

authors： Cornilleau C,Atmane N,Jacquet E,Smits C,Alonso JC,Tavares P,Oliveira L

更新日期：2013-01-07 00:00:00

abstract：:Sets of genes expressed in the same tissue are believed to be under the regulation of a similar set of transcription factors, and can thus be assumed to contain similar structural patterns in their regulatory regions. Here we present a study of the structural patterns in promoters of genes expressed specifically in 26...

journal_title：Nucleic acids research

authors： Vandenbon A,Nakai K

更新日期：2010-01-01 00:00:00

abstract：:Bulky lesions in the template strand block the progression of RNA polymerase II (RNAP II) and are repaired more rapidly than lesions in the non-transcribed strand, which do not block transcription. In order to better understand the basis of this transcription-coupled repair we developed an in vitro system with purifie...

journal_title：Nucleic acids research

authors： Selby CP,Drapkin R,Reinberg D,Sancar A

更新日期：1997-02-15 00:00:00

abstract：:Cyclophilins are a family of proteins that share a common, highly conserved sequence motif. Cyclophilins bind transiently to other proteins and facilitate their folding. One member of the family, hCypH, is part of the human spliceosomal [U4/U6.U5] tri-snRNP complex; it associates specifically and stably with the U4/U6...

journal_title：Nucleic acids research

authors： Ingelfinger D,Göthel SF,Marahiel MA,Reidt U,Ficner R,Lührmann R,Achsel T

更新日期：2003-08-15 00:00:00

abstract：:A dnaB-like protein from P. aeruginosa was purified to near homogeneity using as an assay the immunoprecipitation by E. coli dnaB antiserum in a solid-phase. In the chromatographic characteristics including the affinity to immobilized ATP the dnaB-like protein of P. aeruginosa is similar to the dnaB protein of E. coli...

journal_title：Nucleic acids research

authors： Dreiseikelmann B,Riedel HD,Schuster H

更新日期：1987-01-26 00:00:00

abstract：:PIECE (Plant Intron Exon Comparison and Evolution) is a web-accessible database that houses intron and exon information of plant genes. PIECE serves as a resource for biologists interested in comparing intron-exon organization and provides valuable insights into the evolution of gene structure in plant genomes. Recent...

journal_title：Nucleic acids research

authors： Wang Y,Xu L,Thilmony R,You FM,Gu YQ,Coleman-Derr D

更新日期：2017-01-04 00:00:00

abstract：:A 15-mer DNA aptamer (named TBA) adopts a G-quadruplex structure that strongly inhibits fibrin-clot formation by binding to thrombin. We have performed thermodynamic analysis, binding affinity and biological activity studies of TBA variants modified by unlocked nucleic acid (UNA) monomers. UNA-U placed in position U3,...

journal_title：Nucleic acids research

authors： Pasternak A,Hernandez FJ,Rasmussen LM,Vester B,Wengel J

更新日期：2011-02-01 00:00:00

abstract：:OrthoDB is a comprehensive catalog of orthologs, genes inherited by extant species from a single gene in their last common ancestor. In 2016 OrthoDB reached its 9th release, growing to over 22 million genes from over 5000 species, now adding plants, archaea and viruses. In this update we focused on usability of this f...

journal_title：Nucleic acids research

authors： Zdobnov EM,Tegenfeldt F,Kuznetsov D,Waterhouse RM,Simão FA,Ioannidis P,Seppey M,Loetscher A,Kriventseva EV

更新日期：2017-01-04 00:00:00

abstract：:The HpaR-mediated regulation of the hpa-meta operon (Pg promoter) of the 4-hydroxyphenylacetic acid catabolic pathway of Escherichia coli has been studied. The HpaR regulator was purified to homogeneity showing that it is able to bind selectively to 4-hydroxyphenylacetic, 3-hydroxyphenylacetic and 3,4-dihydroxyphenyla...

journal_title：Nucleic acids research

authors： Galán B,Kolb A,Sanz JM,García JL,Prieto MA

更新日期：2003-11-15 00:00:00

abstract：:p16INK4a and p21WAF1, two major cyclin-dependent kinase inhibitors, are the products of two tumor suppressor genes that play important roles in various cellular metabolic pathways. p21WAF1 is up-regulated in response to different DNA damaging agents. While the activation of p21WAF1 is p53-dependent following -rays, th...

journal_title：Nucleic acids research

authors： Al-Mohanna MA,Al-Khalaf HH,Al-Yousef N,Aboussekhra A

更新日期：2007-01-01 00:00:00

abstract：:We present evidence of formation of an intramolecular parallel triple helix with T*A.T and G*G.C base triplets (where * represents the hydrogen bonding interaction between the third strand and the duplex while. represents the Watson-Crick interactions which stabilize the duplex). The third GT strand, containing seven ...

journal_title：Nucleic acids research

authors： Khomyakova EB,Gousset H,Liquier J,Huynh-Dinh T,Gouyette C,Takahashi M,Florentiev VL,Taillandier E

更新日期：2000-09-15 00:00:00

abstract：:ATRX and MeCP2 belong to an expanding group of chromatin-associated proteins implicated in human neurodevelopmental disorders, although their gene-regulatory activities are not fully resolved. Loss of ATRX prevents full repression of an imprinted gene network in the postnatal brain and in this study we address the mec...

journal_title：Nucleic acids research

authors： Kernohan KD,Vernimmen D,Gloor GB,Bérubé NG

更新日期：2014-07-01 00:00:00

abstract：:The yeast two-hybrid system is frequently used to identify protein-protein interactions. Confirming the specificity of candidate clones requires separation and isolation of yeast plasmids, propagation in bacteria and testing combinations of DNA-binding and activation domain hybrids in yeast. In order to simplify this ...

journal_title：Nucleic acids research

authors： Petermann R,Mossier BM,Aryee DN,Kovar H

更新日期：1998-05-01 00:00:00

abstract：:The underlying mechanism of transcriptional co-repressor ETO2 during early erythropoiesis and hemoglobin switching is unclear. We find that absence of ETO2 in mice interferes with down-regulation of PU.1 and GATA2 in the fetal liver, impeding a key step required for commitment to erythroid maturation. In human β-globi...

journal_title：Nucleic acids research

authors： Guo X,Plank-Bazinet J,Krivega I,Dale RK,Dean A

更新日期：2020-10-09 00:00:00