Abstract：
:The structure of a ribonuclease III processing signal from bacteriophage T7 was examined by NMR spectroscopy, optical melting, and chemical and enzymatic modification. A 41 nucleotide variant of the T7 R1.1 processing signal has two Watson-Crick base-paired helices separated by an internal loop, consistent with its predicted secondary structure. The internal loop is neither rigidly structured nor completely exposed to solvent, and seems to be helical. The secondary structure of R1.1 RNA is largely insensitive to the monovalent cation concentration, which suggests that the monovalent cation sensitivity of secondary site cleavage by RNase III is not due to a low salt-induced RNA conformational change. However, spectroscopic data show that Mg2+ affects the conformation of the internal loop, suggesting a divalent cation binding site(s) within this region. The Mg(2+)-dependence of RNase III processing of some substrates may reflect not only a requirement for a divalent cation as a catalytic cofactor, but also a requirement for a local RNA conformation which is divalent cation-stabilized.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Schweisguth DC,Chelladurai BS,Nicholson AW,Moore PBdoi
10.1093/nar/22.4.604subject
Has Abstractpub_date
1994-02-25 00:00:00pages
604-12issue
4eissn
0305-1048issn
1362-4962journal_volume
22pub_type
杂志文章abstract：:High performance liquid chromatography analysis of imidazole open ring 7-methylguanine, 2-6 diamino-4-hydroxy-5N-methyl-formamidopyrimidine (rom7G), showed two well-separated peaks (fI and fII) of the same magnitude. Rechromatography of each isolated component indicated that they are slowly interconverted to give a 1:...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/12.13.5429
更新日期：1984-07-11 00:00:00
abstract：:The 'sandwich' binding format, which uses two reagents that can bind simultaneously to a given analyte, is the gold standard in diagnostics and many biochemical techniques. One of the bottlenecks in creating a sandwich assay is identifying pairs of reagents that bind non-competitively to the target. To bridge this gap...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkx688
更新日期：2017-10-13 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
pub_type： 杂志文章
doi：10.1093/nar/gkn098
更新日期：2008-05-01 00:00:00
abstract：:Anti-microRNA (miRNA) oligonucleotides (AMOs) with 2'-O-Methyl (2'OMe) residues are commonly used to study miRNA function and can achieve high potency, with low cytotoxicity. Not withstanding this, we demonstrate the sequence-dependent capacity of 2'OMe AMOs to inhibit Toll-like receptor (TLR) 7 and 8 sensing of immun...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gku1343
更新日期：2015-01-01 00:00:00
abstract：:The complete nucleotide sequence of the mitochondrial DNA of the amphioxus Branchiostoma lanceolatum has been determined. This mitochondrial genome is small (15 076 bp) because of the short size of the two rRNA genes and the tRNA genes. In addition, this genome contains a very short non-coding region (57 bp) with no s...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/26.13.3279
更新日期：1998-07-01 00:00:00
abstract：:A fiber optic biosensor was used for the fluorimetric detection of T/AT triple-helical DNA formation. The surfaces of two sets of fused silica optical fibers were functionalized with hexaethylene oxide linkers from which decaadenylic acid oligonucleotides were grown in the 3'to 5'and 5'to 3'direction, respectively, us...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/25.20.4139
更新日期：1997-10-15 00:00:00
abstract：:The editing function of aminoacyl-tRNA synthetases (aaRSs) is indispensible for formation of the correct aminoacyl-tRNAs. Editing deficiency may lead to growth inhibition and the pathogenesis of various diseases. Herein, we confirmed that norvaline (Nva) but not isoleucine or valine is the major threat to the editing ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkx487
更新日期：2017-07-07 00:00:00
abstract：:The Eukaryotic Promoter Database (EPD) is an annotated non-redundant collection of eukaryotic POL II promoters, experimentally defined by a transcription start site (TSS). Access to promoter sequences is provided by pointers to positions in the corresponding genomes. Promoter evidence comes from conventional TSS mappi...
journal_title：Nucleic acids research
pub_type： 历史文章,杂志文章
doi：10.1093/nar/gkj146
更新日期：2006-01-01 00:00:00
abstract：:The transcriptional promoter of satellite 2 from the eastern newt, Notophthalmus viridescens, was analyzed by assaying the activity of deleted or mutated satellite 2 clones in Xenopus laevis oocytes. Two elements in the promoter were found to be important for transcription. These elements have sequences that are simil...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/22.22.4697
更新日期：1994-11-11 00:00:00
abstract：:RNA-Seq is gradually becoming the standard tool for transcriptomic expression studies in biological research. Although considerable progress has been recorded in the development of statistical algorithms for the detection of differentially expressed genes using RNA-Seq data, the list of detected genes can differ signi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gku1273
更新日期：2015-02-27 00:00:00
abstract：:Isogenic pluripotent stem cells are critical tools for studying human neurological diseases by allowing one to study the effects of a mutation in a fixed genetic background. Of particular interest are the spectrum of autism disorders, some of which are monogenic such as Timothy syndrome (TS); others are multigenic suc...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv164
更新日期：2015-05-26 00:00:00
abstract：:The synthesis of 1-(beta-D-2'-deoxyribosyl)-2-pyrimidinone (dK) and its 5-methyl derivative (d5) from 2'-deoxycytidine or 2'-deoxythymidine, respectively, via silver oxide oxidation of 4-hydrazinopyrimidines is described. The necessary hydrazine substituted pyrimidine nucleosides have been prepared by transamination o...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/17.6.2261
更新日期：1989-03-25 00:00:00
abstract：:Radioactive iodine has been used to probe the relative reactivities of nucleosomal H4 tyrosine residues under various conditions of subphysiological ionic strength. We observe that tyrosine 72 of H4, which is not reactive over the range 20-150 mM NaCl, becomes the predominant site of iodination within H4 when nucleoso...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/9.17.4367
更新日期：1981-09-11 00:00:00
abstract：:Targeted gene silencing by RNA interference allows the study of gene function in plants and animals. In cell culture and small animal models, genetic screens can be performed--even tissue-specifically in Drosophila--with genome-wide RNAi libraries. However, a major problem with the use of RNAi approaches is the unavoi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkp450
更新日期：2009-07-01 00:00:00
abstract：:Ribosome biogenesis is a dynamic multistep process, many features of which are still incompletely documented. Here, we show that changes in this pathway can be captured and annotated by means of a graphic set of pre-rRNA ratios, a technique we call Ratio Analysis of Multiple Precursors (RAMP). We find that knocking do...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gku787
更新日期：2014-01-01 00:00:00
abstract：:Previous studies have shown that (i) several RNAs induced by heat shock of Drosophila melanogaster cells are homologous to tandemly repeated alpha beta units found in cloned segments of D. melanogaster DNA, and (ii) the alpha beta sequences are present both at a major heat shock locus, 87Cl, and the chromocenter of po...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/9.20.5297
更新日期：1981-10-24 00:00:00
abstract：:Telomeres play a central role in human cancer, cardiovascular aging and possibly longevity. However, present methods to measure telomere length are fraught with shortcomings that limit their use. Here, we describe a novel method to measure the relative telomere DNA content by dot blot analysis. In each dot, the DNA co...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkr235
更新日期：2011-07-01 00:00:00
abstract：:The MyHits web site (http://myhits.isb-sib.ch) is an integrated service dedicated to the analysis of protein sequences. Since its first description in 2004, both the user interface and the back end of the server were improved. A number of tools (e.g. MAFFT, Jacop, Dotlet, Jalview, ESTScan) were added or updated to imp...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkm352
更新日期：2007-07-01 00:00:00
abstract：:The RSC complex of Saccharomyces cerevisiae is closely related to the SWI/SNF complex. Both complexes are involved in remodeling chromatin structure and they share conserved components. The RSC proteins Sth1, Rsc8/Swh3, Sfh1 and Rsc6 are homologs of the SWI/SNF proteins Swi2/Snf2, Swi3, Snf5 and Swp73 respectively. To...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/26.16.3739
更新日期：1998-08-15 00:00:00
abstract：:Given the many roles proposed for Mg2+ in nucleic acids, it is essential to accurately determine their binding modes. Here, we surveyed the PDB to classify Mg2+ inner-sphere binding patterns to nucleobase imine N1/N3/N7 atoms. Among those, purine N7 atoms are considered to be the best nucleobase binding sites for diva...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw1175
更新日期：2017-01-25 00:00:00
abstract：:Chromatin assembly factor 1 (CAF-1) is a histone H3-H4 chaperone that deposits newly synthesized histone (H3-H4)2 tetramers during replication-coupled nucleosome assembly. However, how CAF-1 functions in this process is not yet well understood. Here, we report the crystal structure of C terminus of Cac1 (Cac1C), a sub...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw106
更新日期：2016-06-20 00:00:00
abstract：:The cytosine base in DNA undergoes hydrolytic deamination at a considerable rate when UV radiation induces formation of a cyclobutane pyrimidine dimer (CPD) with an adjacent pyrimidine base. We have synthesized a phosphoramidite building block of a cis-syn cyclobutane thymine-uracil dimer (T[]U), which is the deaminat...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkh342
更新日期：2004-03-12 00:00:00
abstract：:An intronic hexanucleotide UGCAUG has been shown to play a critical role in the regulation of tissue-specific alternative splicing of pre-mRNAs in a wide range of tissues. Vertebrate Fox-1 has been shown to bind to this element, in a highly sequence-specific manner, through its RNA recognition motif (RRM). In mammals,...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gki338
更新日期：2005-04-11 00:00:00
abstract：:A simple and effective modified ethanol precipitation-based protocol is described for the preparation of DNA from ancient human bones. This method is fast and requires neither hazardous chemicals nor special devices. After the powdering and incubating of the bone samples Dextran Blue was added as a carrier for removin...
journal_title：Nucleic acids research
pub_type： 历史文章,杂志文章
doi：10.1093/nar/28.12.e67
更新日期：2000-06-15 00:00:00
abstract：:We present a general method for isolating molecular markers specific to any region of a chromosome using existing mapping populations. Two pools of DNA from individuals homozygous for opposing alleles for a targeted chromosomal interval, defined by two or more linked RFLP markers, are constructed from members of an ex...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/19.23.6553
更新日期：1991-12-11 00:00:00
abstract：:The small subunit ribosomal RNA gene (16S rRNA) has been successfully used to catalogue and study the diversity of prokaryotic species and communities but it offers limited resolution at the species and finer levels, and cannot represent the whole-genome diversity and fluidity. To overcome these limitations, we introd...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gky467
更新日期：2018-07-02 00:00:00
abstract：:Genes in the germline (micronuclear) genome of hypotrichous ciliates are interrupted by multiple, short, non-coding, AT-rich sequences called internal eliminated segments, or IESs. During conversion of a micronucleus to a somatic nucleus (macronucleus) after cell mating, all IESs are excised from the germline genes an...
journal_title：Nucleic acids research
pub_type： 杂志文章,评审
doi：10.1093/nar/27.5.1243
更新日期：1999-03-01 00:00:00
abstract：:Comprehensive understanding of structure and recognition properties of regulatory nucleic acid elements in real time and atomic level is highly important to devise efficient therapeutic strategies. Here, we report the establishment of an innovative biophysical platform using a dual-app nucleoside analog, which serves ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkz419
更新日期：2019-07-09 00:00:00
abstract：:A novel, site-specific, DNA backbone S-modification (phosphorothioation) has been discovered, but its in vivo function(s) have remained obscure. Here, we report that the enteropathogenic Salmonella enterica serovar Cerro 87, which possesses S-modified DNA, restricts DNA isolated from Escherichia coli, while protecting...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq610
更新日期：2010-11-01 00:00:00
abstract：:The role of TATA elements in the expression of a mammalian promoter was investigated in the fission yeast Schizosaccharomyces pombe, by studying the human adenovirus E2-early promoter. This is a unique dual promoter with two nonconsensus TATA elements directing transcription from two cap sites, +1 and -26. A sequence ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/21.11.2737
更新日期：1993-06-11 00:00:00
