Abstract:
:Restriction fragments containing established curved regions, such as the pBR322 tn3 region, the phage lambda attP region and the SV40 T-antigen and terminus of replication regions, exhibit systematically retarded elution upon anion exchange based HPLC. Using this method, we were able to detect readily other SV40 curved regions, exhibiting also the polyacrylamide gel electrophoresis retardation anomaly, including several RNA polymerase initiation sites. Unlike gel retardation, HPLC retardation exhibited by curved DNA persists at 55 degrees C and is observed for fragments ranging from 150 bp up to 5 kb. The observed preferential attachment of DNA fragments containing curved DNA to the ionic groups of the column suggests a common dipole character of these regions due to the local accumulation of charges resulting apparently from the compression in the minor groove of curved DNA.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Fack F,Sarantoglou Vdoi
10.1093/nar/19.15.4181keywords:
subject
Has Abstractpub_date
1991-08-11 00:00:00pages
4181-8issue
15eissn
0305-1048issn
1362-4962journal_volume
19pub_type
杂志文章abstract::A comprehensive listing is made of posttranscriptionally modified nucleosides from RNA reported in the literature through mid-1994. Included are chemical structures, common names, symbols, Chemical Abstracts registry numbers (for ribonucleoside and corresponding base), Chemical Abstracts Index Name, phylogenetic sourc...
journal_title:Nucleic acids research
pub_type: 杂志文章,评审
doi:10.1093/nar/22.12.2183
更新日期:1994-06-25 00:00:00
abstract::The 3'-untranslated region (UTR) of tobacco mosaic virus (TMV), which terminates in a tRNA-like structure, functionally substitutes for a poly(A) tail in both plant and animal cells. The addition of the TMV 3'-UTR to chimeric mRNA constructs increases their expression up to 100-fold, increasing both translational effi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.18.5031
更新日期:1991-09-25 00:00:00
abstract::iSARST is a web server for efficient protein structural similarity searches. It is a multi-processor, batch-processing and integrated implementation of several structural comparison tools and two database searching methods: SARST for common structural homologs and CPSARST for homologs with circular permutations. iSARS...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp291
更新日期:2009-07-01 00:00:00
abstract::The active and inactive state of transcription factors in growing cells is usually directed by allosteric physicochemical signals or metabolites, which are in turn either produced in the cell or obtained from the environment by the activity of the products of effector genes. To understand the regulatory dynamics and t...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm743
更新日期:2007-01-01 00:00:00
abstract::PIWI-interacting RNAs (piRNAs) engage PIWI proteins to silence transposons and promote germ cell development in animals. In diverse species, piRNA biogenesis occurs near the mitochondrial surface, and involves mitochondrial membrane-anchored factors. In mice, two cytoplasmic PIWI proteins, MIWI and MILI, receive proce...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky1281
更新日期:2019-03-18 00:00:00
abstract::The polyadenylate binding protein 1 (PABPN1) is a ubiquitously expressed RNA binding protein vital for multiple steps in RNA metabolism. Although PABPN1 plays a critical role in the regulation of RNA processing, mutation of the gene encoding this ubiquitously expressed RNA binding protein causes a specific form of mus...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx786
更新日期:2017-10-13 00:00:00
abstract::During DNA replication, the presence of 8-oxoguanine (8-oxoG) lesions in the template strand cause the high-fidelity (HiFi) DNA polymerase (Pol) to stall. An early response to 8-oxoG lesions involves 'on-the-fly' translesion synthesis (TLS), in which a specialized TLS Pol is recruited and replaces the stalled HiFi Pol...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa803
更新日期:2020-11-04 00:00:00
abstract::The Human Gene and Protein Database (HGPD; http://www.HGPD.jp/) is a unique database that stores information on a set of human Gateway entry clones in addition to protein expression and protein synthesis data. The HGPD was launched in November 2008, and 33,275 human Gateway entry clones have been constructed from the ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr1188
更新日期:2012-01-01 00:00:00
abstract::Earlier we have shown that exogenous expression of HIPPI, a molecular partner of Huntingtin interacting protein HIP-1, induces apoptosis and increases expression of caspases-1, -8 and -10 in HeLa and Neuro2A cells. The C-terminal pseudo death effector domain of HIPPI (pDED-HIPPI) specifically interacts with the putati...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp1011
更新日期:2010-01-01 00:00:00
abstract::On the tandemly linked ribosomal genes of Xenopus laevis, the RNA polymerase transcribes past the 3' end of the 40S coding region and terminates at T3 just upstream of the gene promoter. The close proximity of T3 to the gene promoter, and the functional interdependence of these two elements, has led to the suggestion ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/17.1.373
更新日期:1989-01-11 00:00:00
abstract::Protein modification is an extremely important post-translational regulation that adjusts the physical and chemical properties, conformation, stability and activity of a protein; thus altering protein function. Due to the high throughput of mass spectrometry (MS)-based methods in identifying site-specific post-transla...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks1229
更新日期:2013-01-01 00:00:00
abstract::The self-assembly of bis-biotinylated double-stranded DNA and the tetravalent biotin-binding protein streptavidin (STV) have been studied by non-denaturing gel electrophoresis and atomic force microscopy (AFM). The rapid self-assembly reproducibly generated populations of individual oligomeric complexes. Most striking...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.23.4553
更新日期:1999-12-01 00:00:00
abstract::Mitochondrial DNA from human tissue culture cells contains heterogeneous sequences located within a previously identified, evolutionarily conserved region termed CSB-2. CSB-2 is located near the origin of heavy-strand mitochondrial DNA synthesis and the major transcriptional promoters for each strand of human mitochon...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/13.22.8093
更新日期:1985-11-25 00:00:00
abstract::The CRT10 gene was identified through screening of the Saccharomyces cerevisiae deletion library for hydroxyurea (HU) resistance. CRT10 encodes a putative 957 amino acid, 110 kDa protein with a leucine repeat and a WD40 repeat near the N-terminus. Deletion of CRT10 resulted in an enhanced resistance to HU reminiscent ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl100
更新日期:2006-04-05 00:00:00
abstract::In order to study the intragenic profiles of active transcription, we determined the relative levels of active RNA polymerase II present at the 3'- and 5'-ends of 261 yeast genes by run-on. The results obtained indicate that the 3'/5' run-on ratio varies among the genes studied by over 12 log(2) units. This ratio seem...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq215
更新日期:2010-08-01 00:00:00
abstract::Electrophoretic mobility shift assays (EMSA) were used to define the regions of the INO1 promoter that interact with factors present in extracts prepared from the yeast, Saccharomyces cerevisae. These experiments identified three different types of protein:DNA complexes that assemble with the INO1 promoter. Formation ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.14.3987
更新日期:1991-07-25 00:00:00
abstract::The eukaryotic mismatch repair protein Msh6 shares five domains in common with other MutS members. However, it also contains several hundred additional residues at its N-terminus. A few of these residues bind to PCNA, but the functions of the other amino acids in the N-terminal region (NTR) are unknown. Here we demons...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm409
更新日期:2007-01-01 00:00:00
abstract::MicroRNAs (miRNAs) are small RNA molecules that regulate gene expression. They are characterized by specific maturation processes defined by canonical and non-canonical biogenic pathways. Analysis of ∼0.5 billion sequences from mouse data sets derived from different tissues, developmental stages and cell types, partly...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks1474
更新日期:2013-03-01 00:00:00
abstract::Analysis of intergenic sequences for purposes such as the investigation of transcriptional signals or the identification of small RNA genes is frequently complicated by traditional biological database structures. Genome data is commonly treated as chromosome-length sequence records, detailed by gene calls demarcating ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg013
更新日期:2003-01-01 00:00:00
abstract::Silencing gene expression by siRNAs is rapidly becoming a powerful tool for the genetic analysis of mammalian cells. However, the rapid degradation of siRNA and the limited duration of its action call for an efficient delivery technology. Accordingly, we describe here that Atelocollagen complexed with siRNA is resista...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gnh093
更新日期:2004-07-22 00:00:00
abstract::The remarkable selectivity of N-methyl mesoporphyrin IX (NMM) for G-quadruplexes (GQs) is long known, however its ability to stabilize and bind GQs has not been investigated in detail. Through the use of circular dichroism, UV-visible spectroscopy and fluorescence resonance energy transfer (FRET) melting assay we have...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks152
更新日期:2012-07-01 00:00:00
abstract::An endo-exonuclease has been purified from cultured monkey (CV-1) cells. The enzyme which was purified to near homogeneity to be a 65 kDa monomeric protein. The single-strand DNase activity is endonucleolytic and nonprocessive, whereas the double-strand DNase activity is exonucleolytic and processive. The enzyme was a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/20.16.4355
更新日期:1992-08-25 00:00:00
abstract::EcoCyc is an organism-specific Pathway/Genome Database that describes the metabolic and signal-transduction pathways of Escherichia coli, its enzymes, and-a new addition-its transport proteins. MetaCyc is a new metabolic-pathway database that describes pathways and enzymes of many different organisms, with a microbial...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.1.56
更新日期:2000-01-01 00:00:00
abstract::As more and more high-throughput data has been produced by next-generation sequencing, it is still a challenge to classify RNA transcripts into protein-coding or non-coding, especially for poorly annotated species. We upgraded our original coding potential calculator, CNCI (Coding-Non-Coding Index), to CNIT (Coding-No...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz400
更新日期:2019-07-02 00:00:00
abstract::Human lung epithelioid cells were treated with Benzo (a) pyrene diol epoxide (anti) in order to establish the binding and removal of covalent adducts in chromosomal components. Isolating two different classes of mononucleosomes, it was found that their DNA contained different concentrations of B(a)PDE-DNA adducts, whi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.24.9897
更新日期:1986-12-22 00:00:00
abstract::A small cloned DNA segment previously shown to contain all genetic information for the expression of the tRNA1met gene of Xenopus laevis was cleaved into an anterior and posterior portion by Hae III restriction. Both restriction fragments were cloned in pCR1 using EcoRI linkers. Starting from these tDNA subclones, a s...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/7.7.1749
更新日期:1979-12-11 00:00:00
abstract::High-throughput experimental technologies gradually shift the paradigm of biological research from hypothesis-validation toward hypothesis-generation science. Translating diverse types of large-scale experimental data into testable hypotheses, however, remains a daunting task. We previously demonstrated that heterogen...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku367
更新日期:2014-07-01 00:00:00
abstract::CRISPR/Cas9 is a powerful genome editing system but uncontrolled Cas9 nuclease expression triggers off-target effects and even in vivo immune responses. Inspired by synthetic biology, here we built a synthetic switch that self-regulates Cas9 expression not only in the transcription step by guide RNA-aided self-cleavag...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky1165
更新日期:2019-02-20 00:00:00
abstract::The rpoA gene, encoding the alpha subunit of RNA polymerase, was cloned from Streptomyces coelicolor A3(2). It is preceded by rpsK and followed by rplQ, encoding ribosomal proteins S11 and L17, respectively, similar to the gene order in Bacillus subtilis. The rpoA gene specifies a protein of 339 amino acids with deduc...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.22.4565
更新日期:1996-11-15 00:00:00
abstract::The Galaxy HiCExplorer provides a web service at https://hicexplorer.usegalaxy.eu. It enables the integrative analysis of chromosome conformation by providing tools and computational resources to pre-process, analyse and visualize Hi-C, Capture Hi-C (cHi-C) and single-cell Hi-C (scHi-C) data. Since the last publicatio...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa220
更新日期:2020-07-02 00:00:00