Abstract:
:A homogeneous nucleic acid hybridization assay which is conducted in solution and requires no separation steps is described. The assay is based on the concept of strand displacement. In the strand displacement assay, an RNA "signal strand" is hybridized within a larger DNA strand termed the "probe strand", which is, in turn, complementary to the target nucleic acid of interest. Hybridization of the target nucleic acid with the probe strand ultimately results in displacement of the RNA signal strand. Strand displacement, therefore, causes conversion of the RNA from double to single-stranded form. The single-strand specificity of polynucleotide phosphorylase (EC 2.7.7.8) allows discrimination between double-helical and single-stranded forms of the RNA signal strand. As displacement proceeds, free RNA signal strands are preferentially phosphorolyzed to component nucleoside diphosphates, including adenosine diphosphate. The latter nucleotide is converted to ATP by pyruvate kinase(EC 2.7.1.40). Luciferase catalyzed bioluminescence is employed to measure the ATP generated as a result of strand displacement.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Vary CPdoi
10.1093/nar/15.17.6883subject
Has Abstractpub_date
1987-09-11 00:00:00pages
6883-97issue
17eissn
0305-1048issn
1362-4962journal_volume
15pub_type
杂志文章abstract::Enzymes of intermediary metabolism are often reported to have moonlighting functions as RNA-binding proteins and have regulatory roles beyond their primary activities. Human serine hydroxymethyltransferase (SHMT) is essential for the one-carbon metabolism, which sustains growth and proliferation in normal and tumour c...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz129
更新日期:2019-05-07 00:00:00
abstract::The single nucleotide polymorphisms (SNPs) in conserved protein regions have been thought to be strong candidates that alter protein functions. Thus, we have developed SNP@Domain, a web resource, to identify SNPs within human protein domains. We annotated SNPs from dbSNP with protein structure-based as well as sequenc...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl323
更新日期:2006-07-01 00:00:00
abstract::Primer extension studies have shown that the Y-family DNA polymerase IV (Dpo4) from Sulfolobus solfataricus P2 can preferentially insert C opposite N-(deoxyguanosin-8-yl)-2-acetylaminofluorene (AAF-dG) [F. Boudsocq, S. Iwai, F. Hanaoka and R. Woodgate (2001) Nucleic Acids Res., 29, 4607-4616]. Our goal is to elucidate...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkj479
更新日期:2006-02-01 00:00:00
abstract::PomBase (http://www.pombase.org) is the model organism database for the fission yeast Schizosaccharomyces pombe. PomBase provides a central hub for the fission yeast community, supporting both exploratory and hypothesis-driven research. It provides users easy access to data ranging from the sequence level, to molecula...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku1040
更新日期:2015-01-01 00:00:00
abstract::The Arabidopsis Information Resource (TAIR, http://arabidopsis.org) is the model organism database for the fully sequenced and intensively studied model plant Arabidopsis thaliana. Data in TAIR is derived in large part from manual curation of the Arabidopsis research literature and direct submissions from the research...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm965
更新日期:2008-01-01 00:00:00
abstract::We previously constructed a multiribozyme expression vector by combining cis- and trans-acting ribozymes and we showed that several ribozymes, each directed against a different target in the HIV genome and acting independently in a 'shotgun' manner, markedly increased the efficiency of cleavage of HIV RNA in vitro [Oh...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.23.5060
更新日期:1994-11-25 00:00:00
abstract::The study of bacterial isolates or communities requires the analysis of the therein included plasmids in order to provide an extensive characterization of the organisms. Plasmids harboring resistance and virulence factors are of especial interest as they contribute to the dissemination of antibiotic resistance. As the...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky1050
更新日期:2019-01-08 00:00:00
abstract::The Saccharomyces cerevisiae Sgs1p helicase localizes to the nucleolus and is required to maintain the integrity of the rDNA repeats. Sgs1p is a member of the RecQ DNA helicase family, which also includes Schizo-saccharomyces pombe Rqh1, and the human BLM and WRN genes. These genes encode proteins which are essential ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.9.1978
更新日期:1999-05-01 00:00:00
abstract::With the aid of a novel poly-dA tailing-partial restriction technique and S1-protection mapping, the 5' terminal coding sequence for the 40S precursor ribosomal RNA of Xenopus laevis has been exactly identified. Since the promoter sequence for the 40S RNA should lie close to its 5' terminal coding sequence, we are abl...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/6.12.3733
更新日期:1979-08-24 00:00:00
abstract::Topoisomerases are ubiquitous proteins found in all three domains of life. They change the topology of DNA via transient breaks on either one or two of the DNA strands to allow passage of another single or double DNA strand through the break. Topoisomerases are classified into two types: type I enzymes cleave one DNA ...
journal_title:Nucleic acids research
pub_type: 杂志文章,评审
doi:10.1093/nar/gkn1009
更新日期:2009-02-01 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::We have isolated a rat cDNA, named FE65, hybridizing to an mRNA of about 2,300 nucleotides present in rat brain, undetectable in rat liver and very poorly represented in other tissues. An mRNA of the same size is present in human neuroblastoma cells and is absent from other human cell lines. The FE65 cDNA contains an ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.19.5269
更新日期:1991-10-11 00:00:00
abstract::The catalytic subunit of the DNA-dependent protein kinase (DNA-PKcs) is a member of a sub-family of phosphatidylinositol (PI) 3-kinases termed PIK-related kinases. A distinguishing feature of this sub-family is the presence of a conserved C-terminal region downstream of a PI 3-kinase domain. Mutants defective in DNA-P...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/26.8.1965
更新日期:1998-04-15 00:00:00
abstract::Laser microirradiation is a powerful tool for real-time single-cell analysis of the DNA damage response (DDR). It is often found, however, that factor recruitment or modification profiles vary depending on the laser system employed. This is likely due to an incomplete understanding of how laser conditions/dosages affe...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv976
更新日期:2016-02-18 00:00:00
abstract::Aminoglycosides antibiotics negate dissociation and recycling of the bacterial ribosome's subunits by binding to Helix 69 (H69) of 23S rRNA. The differential binding of various aminoglycosides to the chemically synthesized terminal domains of the Escherichia coli and human H69 has been characterized using spectroscopy...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp1253
更新日期:2010-05-01 00:00:00
abstract::The E.coli ada gene protein coding region has been ligated into an extrachromosomally replicating yeast expression vector downstream of the yeast alcohol dehydrogenase gene promoter region to produce pADH06C. The yeast strains SX46A, 7799-4B and VV-6 are deficient in endogenous O6-alkylguanine-DNA-alkyltransferase and...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/18.2.331
更新日期:1990-01-25 00:00:00
abstract::The human beta-actin promoter, including its 5' flanking region and 5' untranslated region, is ubiquitously active in mammalian cells in culture. In this report we investigated the transcriptional activity of, and the protein-DNA interactions that occur within, the proximal region of the human beta-actin promoter. Eff...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.24.6913
更新日期:1991-12-25 00:00:00
abstract::Synthesis of HIV GagPol involves a proportion of ribosomes translating a U6A shift site at the distal end of the gag gene performing a programmed -1 ribosomal frameshift event to enter the overlapping pol gene. In vitro studies here show that at the same shift motif HIV reverse transcriptase generates -1 and +1 indels...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx690
更新日期:2017-09-29 00:00:00
abstract::The Escherichia coli AlkB protein (EcAlkB) is a DNA repair enzyme which reverses methylation damage such as 1-methyladenine (1-meA) and 3-methylcytosine (3-meC). The mammalian AlkB homologues ALKBH2 and ALKBH3 display EcAlkB-like repair activity in vitro, but their substrate specificities are different, and ALKBH2 is ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks327
更新日期:2012-08-01 00:00:00
abstract::Escherichia coli MutY is an adenine and a weak guanine DNA glycosylase involved in reducing mutagenic effects of 7,8-dihydro-8-oxo-guanine (8-oxoG). The C-terminal domain of MutY is required for 8-oxoG recognition and is critical for mutation avoidance of oxidative damage. To determine which residues of this domain ar...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg434
更新日期:2003-06-15 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/12.19.7565
更新日期:1984-10-11 00:00:00
abstract::Tight cell-cycle regulation of the histone H4-K20 methyltransferase PR-Set7 is essential for the maintenance of genome integrity. In mammals, this mainly involves the interaction of PR-Set7 with the replication factor PCNA, which triggers the degradation of the enzyme by the CRL4CDT2 E3 ubiquitin ligase. PR-Set7 is al...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky034
更新日期:2018-04-06 00:00:00
abstract::TFIIB plays a pivotal role during assembly of the RNA polymerase II transcription preinitiation complex. TFIIB is composed of two domains that engage in an intramolecular interaction that can be disrupted by the VP16 activation domain. In this study, we describe a novel human TFIIB derivative harbouring two point muta...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh504
更新日期:2004-03-22 00:00:00
abstract::The endoribonuclease RNase E is a key enzyme in RNA metabolism for many bacterial species. In Escherichia coli, RNase E contributes to the majority of RNA turnover and processing events, and the enzyme has been extensively characterized as the central component of the RNA degradosome assembly. A similar RNA degradosom...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku1134
更新日期:2014-12-01 00:00:00
abstract::Human apolipoprotein (apo) B mRNA is edited in a tissue specific reaction, to convert glutamine codon 2153 (CAA) to a stop translation codon. The RNA editing product templates and hybridises as uridine, but the chemical nature of this reaction and the physical identity of the product are unknown. After editing in vitr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.6.1197
更新日期:1991-03-25 00:00:00
abstract::Chromatin organization and epigenetic markers influence splicing, though the magnitudes of these effects and the mechanisms are largely unknown. Here, we demonstrate that linker histone H1.5 influences mRNA splicing. We observed that linker histone H1.5 binds DNA over splice sites of short exons in human lung fibrobla...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz338
更新日期:2019-07-09 00:00:00
abstract::The three-dimensional structures of two DNA duplexes d(CATGAGTAC). d(GTACXCATG) (1) and d(CATGAGTAC).d(GTACTCATG) (2), where X represents 1-(2'-deoxy-beta-D-ribofuranosyl)-3-nitropyrrole, were solved using high resolution nuclear magnetic resonance spectroscopy and restrained molecular dynamics. Good convergence was o...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.22.4514
更新日期:2000-11-15 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/20.7.1579
更新日期:1992-04-11 00:00:00
abstract::The transcription regulator, tvMyb1, is the first Myb family protein identified in Trichomonas vaginalis. Using an electrophoretic mobility shift assay, we defined the amino-acid sequence from Lys(35) to Ser(141) (tvMyb1(35-141)) as the minimal DNA-binding domain, encompassing two Myb-like DNA-binding motifs (designat...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp097
更新日期:2009-04-01 00:00:00
abstract::We describe a dedicated RNA motif search program and web server to identify RNA riboswitches. The Riboswitch finder analyses a given sequence using the web interface, checks specific sequence elements and secondary structure, calculates and displays the energy folding of the RNA structure and runs a number of tests in...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh352
更新日期:2004-07-01 00:00:00