The nucleotide sequence of a UGA suppressor serine tRNA from Schizosaccharomyces pombe.

abstract：:DIAL (dihedral alignment) is a web server that provides public access to a new dynamic programming algorithm for pairwise 3D structural alignment of RNA. DIAL achieves quadratic time by performing an alignment that accounts for (i) pseudo-dihedral and/or dihedral angle similarity, (ii) nucleotide sequence similarity a...

journal_title：Nucleic acids research

authors： Ferrè F,Ponty Y,Lorenz WA,Clote P

更新日期：2007-07-01 00:00:00

abstract：:The synthesis of cyclic di-, tri-, tetra-, penta- and hexa-thymidylic acids (16; n = 2, 3, 4, 5 and 6) and the cyclic hexadeoxyribonucleotide [d(CpCpTpApGpGp)], via the "filtration" approach, is reported. Some of the physical properties of the cyclic oligonucleotides are discussed, and their susceptibility to digestio...

journal_title：Nucleic acids research

authors： Rao MV,Reese CB

更新日期：1989-10-25 00:00:00

abstract：:Nucleotide sequences of large T1 ribonuclease fragments of 18S ribosomal RNA of Novikoff rat ascites hepatoma cells and chicken lymphoblastoid cells were determined and compared. Among the 19 large T1 ribonuclease fragments examined of rat 18S ribosomal RNA, 12 fragments were found to be the same in chicken 18S riboso...

journal_title：Nucleic acids research

authors： Fuke M,Busch H

更新日期：1979-11-10 00:00:00

abstract：:TIAR and HuR are mRNA-binding proteins that play important roles in the regulation of translation. They both possess three RNA recognition motifs (RRMs) and bind to AU-rich elements (AREs), with seemingly overlapping specificity. Here we show using SPR that TIAR and HuR bind to both U-rich and AU-rich RNA in the nanom...

journal_title：Nucleic acids research

authors： Kim HS,Wilce MC,Yoga YM,Pendini NR,Gunzburg MJ,Cowieson NP,Wilson GM,Williams BR,Gorospe M,Wilce JA

更新日期：2011-02-01 00:00:00

abstract：:Ribosome biogenesis (RiBi) is an extremely energy intensive process that is critical for gene expression. It is thus highly regulated, including through the tightly coordinated expression of over 200 RiBi genes by positive and negative transcriptional regulators. We investigated RiBi regulation as cells initiated meio...

journal_title：Nucleic acids research

authors： Cheng Z,Brar GA

更新日期：2019-06-04 00:00:00

abstract：:In this article, we characterize histone demethylase activity of the entire family of JmjC+N proteins of Drosophila melanogaster. Our results show that Lid (little imaginal discs), which is structurally homologous to JARID1, demethylates H3K4me3. However, contrary to what would be inferred from its demethylase activit...

journal_title：Nucleic acids research

authors： Lloret-Llinares M,Carré C,Vaquero A,de Olano N,Azorín F

更新日期：2008-05-01 00:00:00

abstract：:A new procedure for the purification of B. subtilis RNA polymerase, based on mild lysis of cells, low speed centrifugation, gel filtration, DEAE-Sephadex chromatography and affinity chromatography on DNA-cellulose, yields three forms of enzyme referred here as enzyme A, B and C. As revealed by SDS gel electrophoresis,...

journal_title：Nucleic acids research

authors： Plevan P,Albertini AM,Galizzi A,Adamoli A,Mastromei G,Riva S,Cassani G

更新日期：1977-03-01 00:00:00

abstract：:Recent advances in DNA-sequencing technology have made it possible to obtain large datasets of small RNA sequences. Here we demonstrate that not all non-perfectly matched small RNA sequences are simple technological sequencing errors, but many hold valuable biological information. Analysis of three small RNA datasets ...

journal_title：Nucleic acids research

authors： Ebhardt HA,Tsang HH,Dai DC,Liu Y,Bostan B,Fahlman RP

更新日期：2009-05-01 00:00:00

abstract：:We describe the structure (3840 bp) of a novel Euglena gracilis chloroplast ribosomal protein operon that encodes the five genes rpl16-rpl14-rpl5-rps8-rpl36. The gene organization resembles the spc and the 3'-end of the S10 ribosomal protein operons of E. coli. The rpl5 is a new chloroplast gene not previously reporte...

journal_title：Nucleic acids research

authors： Christopher DA,Hallick RB

更新日期：1989-10-11 00:00:00

abstract：:We have previously reported that transcription from a distal promoter (promoter B) of the estrogen receptor alpha (ERalpha) gene is responsible for the increased expression of ERalpha in human breast carcinomas. This paper first characterized the promoter B region in terms of transient transfection experiments with lu...

journal_title：Nucleic acids research

authors： Tanimoto K,Eguchi H,Yoshida T,Hajiro-Nakanishi K,Hayashi S

更新日期：1999-02-01 00:00:00

abstract：:Signal transduction ATPases with numerous domains (STAND) get activated through inducer-dependent assembly into multimeric platforms. This switch relies on the conversion of their nucleotide-binding oligomerization domain (NOD) from a closed, ADP-bound form to an open, ATP-bound form. The NOD closed form is stabilized...

journal_title：Nucleic acids research

authors： Danot O

更新日期：2015-03-31 00:00:00

abstract：:An oligonucleotide hybrid is described which possesses two triple helix forming oligonucleotides which have been connected by a flexible polymeric linker chain. As a prototype, binding of this class of oligonucleotide to duplex DNA has been studied using a segment of the HSV-1 D-glycoprotein promoter, which possesses ...

journal_title：Nucleic acids research

authors： Kessler DJ,Pettitt BM,Cheng YK,Smith SR,Jayaraman K,Vu HM,Hogan ME

更新日期：1993-10-11 00:00:00

abstract：:Extracts of the human glioma cell line A1235 (lacking O(6)-methylguanine-DNA methyltransferase) are known to restore a G:T mismatch to a normal G:C pair in a G:T-containing model (45 bp) DNA substrate. Herein we demonstrate that substitution of G:T with O(6)-methylguanine:T (m6G:T) results in extract-induced intra-str...

journal_title：Nucleic acids research

authors： Lari SU,Day RS,Dobler K,Paterson MC

更新日期：2001-06-01 00:00:00

abstract：:G-quadruplexes are dynamic structures folded in G-rich single-stranded DNA regions. These structures have been recognized as a potential nucleic acid based mechanism for regulating multiple cellular processes such as replication, transcription and genomic maintenance. So far, their transcriptional role in vivo during ...

journal_title：Nucleic acids research

authors： David AP,Margarit E,Domizi P,Banchio C,Armas P,Calcaterra NB

更新日期：2016-05-19 00:00:00

abstract：:We investigate the role of water molecules in 89 protein-RNA complexes taken from the Protein Data Bank. Those with tRNA and single-stranded RNA are less hydrated than with duplex or ribosomal proteins. Protein-RNA interfaces are hydrated less than protein-DNA interfaces, but more than protein-protein interfaces. Majo...

journal_title：Nucleic acids research

authors： Barik A,Bahadur RP

更新日期：2014-09-01 00:00:00

abstract：:Alfalfa mosaic virus RNA 4, the subgenomic messenger for viral coat protein, was partially digested with RNase T1 or RNase A and the sequence of a number of fragments was deduced by in vitro labeling with polynucleotide kinase and application of RNA sequencing techniques. From overlapping fragments, the complete prima...

journal_title：Nucleic acids research

authors： Brederode FT,Koper-Zwarthoff EC,Bol JF

更新日期：1980-05-24 00:00:00

abstract：:It has recently been demonstrated that nucleobase-density profiles of typical mRNA coding sequences exhibit a complementary relationship with nucleobase-interaction propensity profiles of their cognate protein sequences. This finding supports the idea that the genetic code developed in response to direct binding inter...

journal_title：Nucleic acids research

authors： Hlevnjak M,Zagrovic B

更新日期：2015-03-31 00:00:00

abstract：:Findings from clinical and biological studies are often not reproducible when tested in independent cohorts. Due to the testing of a large number of hypotheses and relatively small sample sizes, results from whole-genome expression studies in particular are often not reproducible. Compared to single-study analysis, ge...

journal_title：Nucleic acids research

authors： Sweeney TE,Haynes WA,Vallania F,Ioannidis JP,Khatri P

更新日期：2017-01-09 00:00:00

abstract：:Adenosine to inosine editing of mRNA from the human 5-HT2C receptor gene (HTR2C) occurs at five exonic positions (A-E) in a stable stem-loop that includes the normal 5' splice site of intron 5 and is flanked by two alternative splice sites. Using in vitro editing, we identified a novel editing site (F) located in the ...

journal_title：Nucleic acids research

authors： Flomen R,Knight J,Sham P,Kerwin R,Makoff A

更新日期：2004-04-15 00:00:00

abstract：:Allosteric nucleic acid ligases have been used previously to transform analyte-binding into the formation of oligonucleotide templates that can be amplified and detected. We have engineered binary deoxyribozyme ligases whose two components are brought together by bridging oligonucleotide effectors. The engineered liga...

journal_title：Nucleic acids research

authors： Tabor JJ,Levy M,Ellington AD

更新日期：2006-04-28 00:00:00

abstract：:The activation of a telomere maintenance mechanism is required for cancer development in humans. While most tumors achieve this by expressing the enzyme telomerase, a fraction (5-15%) employs a recombination-based mechanism termed alternative lengthening of telomeres (ALT). Here we show that loss of the single-strande...

journal_title：Nucleic acids research

authors： Grudic A,Jul-Larsen A,Haring SJ,Wold MS,Lønning PE,Bjerkvig R,Bøe SO

更新日期：2007-01-01 00:00:00

abstract：:To investigate the mechanisms by which oligonucleotides hybridize to target molecules, the binding of two oligodeoxynucleotide probes to RNA targets was measured over a broad range of temperatures. Mutations were then scanned across each DNA/RNA hybrid to map, at single base resolution, sequences important for hybridi...

journal_title：Nucleic acids research

authors： Majlessi M,Becker MM

更新日期：2008-05-01 00:00:00

abstract：:We have studied the regulation of DNA ligase I gene expression in UV-C irradiated human primary fibroblasts. An increase of approximately 6-fold both in DNA ligase I messenger and activity levels was observed 24 h after UV treatment, when nucleotide excision repair (NER) is no longer operating. DNA ligase I induction ...

journal_title：Nucleic acids research

authors： Montecucco A,Savini E,Biamonti G,Stefanini M,Focher F,Ciarrocchi G

更新日期：1995-03-25 00:00:00

abstract：:The DNA-binding specificity and affinity of the dimeric human transcription factor (TF) STAT1, were assessed by total internal reflectance fluorescence protein-binding microarrays (TIRF-PBM) to evaluate the effects of protein phosphorylation, higher-order polymerization and small-molecule inhibition. Active, phosphory...

journal_title：Nucleic acids research

authors： Bonham AJ,Wenta N,Osslund LM,Prussin AJ 2nd,Vinkemeier U,Reich NO

更新日期：2013-01-01 00:00:00

abstract：:We have synthesized the tetradecamer GAGCXGATAACAAG containing a part of the sequence of the lactose operator. A guanine base in the sequence is replaced by the adduct of the carcinogen 2-acetylaminofluorene with guanine. Under the standard conditions of de-protection, the fluorene moiety is lost, leaving behind a gua...

journal_title：Nucleic acids research

authors： Stöhrer G,Osband JA,Alvarado-Urbina G

更新日期：1983-08-11 00:00:00

abstract：:The X-ray crystal structure of the complex between the synthetic antitumour and antiviral DNA binding ligand SN 7167 and the DNA oligonucleotide d(CGCGAATTCGCG)2 has been determined to an R factor of 18.3% at 2.6 A resolution. The ligand is located within the minor groove and covers almost 6 bp with the 1-methylpyridi...

journal_title：Nucleic acids research

authors： Squire CJ,Clark GR,Denny WA

更新日期：1997-10-15 00:00:00

abstract：:The Yeast Protein Localization database (YPL.db) contains information about the localization patterns of yeast proteins resulting from microscopic analyses. The data and parameters of the experiments to obtain the localization information, together with images from confocal or video microscopy, are stored in a relatio...

journal_title：Nucleic acids research

authors： Habeler G,Natter K,Thallinger GG,Crawford ME,Kohlwein SD,Trajanoski Z

更新日期：2002-01-01 00:00:00

abstract：:Ornithine decarboxylase (ODC) expression is important for proliferation and is elevated in many tumor cells. We previously showed that Sp1 is a major positive regulator of ODC transcription. In this paper we have investigated transcriptional regulation of rat ODC by the closely related factor Sp3. While over-expressio...

journal_title：Nucleic acids research

authors： Kumar AP,Butler AP

更新日期：1997-05-15 00:00:00

abstract：:The annotation of protein function has become a crucial problem with the advent of sequence and structural genomics initiatives. A large body of evidence suggests that protein structural information is frequently encoded in local sequences, and that folds are mainly made up of a number of simple local units of super-s...

journal_title：Nucleic acids research

authors： Espadaler J,Fernandez-Fuentes N,Hermoso A,Querol E,Aviles FX,Sternberg MJ,Oliva B

更新日期：2004-01-01 00:00:00

abstract：:Topoisomerases (topos) maintain DNA topology and influence DNA transaction processes by catalysing relaxation, supercoiling and decatenation reactions. In the cellular milieu, division of labour between different topos ensures topological homeostasis and control of central processes. In Escherichia coli, DNA gyrase is...

journal_title：Nucleic acids research

authors： Kumar R,Riley JE,Parry D,Bates AD,Nagaraja V

更新日期：2012-11-01 00:00:00