Abstract:
:A sensitive gel retention assay has been utilized to detect proteins from uninfected Hela nuclei which interact with the adenovirus type 2 enhancer. This assay has been employed to monitor fractionation of nuclear extracts. Three enhancer binding factors were resolved by chromatography on DEAE-Sepharose and one of the factors was further purified by chromatography on heparin-Sepharose. DNase protection experiments have shown that the heparin-Sepharose fraction contains a factor which binds predominantly to the conserved sequence GTGGAAATTT present at position 160 in the adenovirus type 2 genome and found in many viral and cellular enhancers. Protection of this sequence from DNase I digestion was abolished by competition with a synthetic duplex oligonucleotide spanning bases 144-181. This region corresponds to the sequence defined by Hen et al. as possessing enhancer function. Competition experiments indicated that the enhancer binding factor also bound, albeit with reduced affinity, to multiple sites in the Ela upstream region located between positions 192 and 353. Within the sequences which compete are regions with homology to the high affinity site at position 160. The enhancer binding factor also binds with high affinity to sequences within the SV40 enhancer demonstrating that this factor interacts with sequences common to both the adenovirus and SV40 enhancers.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Barrett P,Clark L,Hay RTdoi
10.1093/nar/15.6.2719subject
Has Abstractpub_date
1987-03-25 00:00:00pages
2719-35issue
6eissn
0305-1048issn
1362-4962journal_volume
15pub_type
杂志文章abstract::Earlier studies in DNA self-assembly have foretold the feasibility of building addressable nanostructures with multi-stranded motifs, which is fully validated in this study. In realizing this feasibility in DNA nanotechnology, a diversified set of motifs of modified domain lengths is extended from a classic type. The ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx121
更新日期:2017-04-07 00:00:00
abstract::Large expansions of the trinucleotide repeat GAA*TTC within the first intron of the X25 (frataxin) gene cause Friedreich's ataxia, the most common inherited ataxia. Expansion leads to reduced levels of frataxin mRNA in affected individuals. Here we show that GAA*TTC tracts, in the absence of any other frataxin gene se...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.14.2815
更新日期:2000-07-15 00:00:00
abstract::Transfer RNAGlu4 was isolated from Drosophila melanogaster by affinity chromatography. The tRNA was iodinated "in vitro" with Na[25I] and hybridized "in situ" to salivary gland chromosomes from Drosophila. Subsequent autoradiography allowed the localization of the genes for tRNAGlu4 to the right arm of the second chro...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/5.5.1465
更新日期:1978-05-01 00:00:00
abstract::Approximately 30% of human tumors characterized to date express DNA polymerase beta (pol beta) variant proteins. Two of the polymerase beta cancer-associated variants are sequence-specific mutators, and one of them binds to DNA but has no polymerase activity. The Leu22Pro (L22P) DNA polymerase beta variant was identif...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm1053
更新日期:2008-02-01 00:00:00
abstract::Proteins that catalyse homologous recombination have been identified in all living organisms and are essential for the repair of damaged DNA as well as for the generation of genetic diversity. In bacteria homologous recombination is performed by the RecA protein, whereas in the eukarya a related protein called Rad51 i...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/29.22.4509
更新日期:2001-11-15 00:00:00
abstract::Identification of MHC-binding peptides is a prerequisite in rational design of T-cell based peptide vaccines. During the past decade a number of computational approaches have been introduced for the prediction of MHC-binding peptides, efficiently reducing the number of candidate binders that need to be experimentally ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl284
更新日期:2006-07-01 00:00:00
abstract::RNA sequencing (RNA-Seq) is a powerful tool for analyzing the identity of cellular RNAs but is often limited by the amount of material available for analysis. In spite of extensive efforts employing existing protocols, we observed that it was not possible to obtain useful sequencing libraries from nuclear RNA derived ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv213
更新日期:2015-06-23 00:00:00
abstract::We have used DNase I footprinting to examine the association kinetics of GA-, GT- and CT-containing oligonucleotides with the target sequence (GGA)5GG. (CCT)5CC. These reactions are slow yielding bimolecular association rate constants between 50 and 2000 M-1s-1. We find that GT-containing oligonucleotides bind much fa...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/25.16.3269
更新日期:1997-08-15 00:00:00
abstract::R.E.D. Server is a unique, open web service, designed to derive non-polarizable RESP and ESP charges and to build force field libraries for new molecules/molecular fragments. It provides to computational biologists the means to derive rigorously molecular electrostatic potential-based charges embedded in force field l...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr288
更新日期:2011-07-01 00:00:00
abstract::We have previously shown that the pyrimidine oligonucleotide 5'CTTCCTCCTCT (Y11) recognizes the double-helical stem of hairpin 5'GAAGGAGGAGA-T4-TCTCCTCCTTC (h26) by triple-helix formation (1). In this paper, we report the effect on triplex formation of substituting the cytosine residues of Y11 with 5-methylcytosines (...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.20.5625
更新日期:1991-10-25 00:00:00
abstract::Nucleotide excision repair (NER) mechanism is the major pathway responsible for the removal of a large variety of bulky lesions from the genome. Two different NER subpathways have been identified, i.e. the transcription-coupled and the global genome repair pathways. For DNA-damage induced by ultraviolet light both tra...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.23.4653
更新日期:1996-12-01 00:00:00
abstract::Chromatin boundaries regulate gene expression by modulating enhancer-promoter interactions and insulating transcriptional influences from organized chromatin. However, mechanistic distinctions between these two aspects of boundary function are not well understood. Here we show that SF1, a chromatin boundary located in...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp362
更新日期:2009-07-01 00:00:00
abstract::Transcription factor IIIA (TFIIIA) is specifically required for transcription of 5S rRNA genes and is the archetypal C2H2 zinc finger protein. All known vertebrate TFIIIAs have a similar organization: nine zinc fingers, followed by a C-terminal domain of unknown structure. The zinc fingers of Saccharomyces cerevisiae ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkf385
更新日期:2002-07-01 00:00:00
abstract::Details of polynucleotide flexibility may be probed through a combination of semiempirical potential energy calculations and statistical mechanical analyses. The pseudorotational motions of the furanose and the long-range correlated rotations of the chain backbone are described briefly here. ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/10.3.777
更新日期:1982-02-11 00:00:00
abstract::The major surface antigen of procyclic and epimastigote forms of Trypanosoma congolense in the tsetse fly is GARP (glutamic acid/alanine-rich protein), which is thought to be the analogue of procyclin/PARP in Trypanosoma brucei. We have studied two T.congolense GARP loci (the 4.3 and 4.4 loci) whose transcription is a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.2.272
更新日期:1996-01-15 00:00:00
abstract::A vast number of sweet tasting molecules are known, encompassing small compounds, carbohydrates, d-amino acids and large proteins. Carbohydrates play a particularly big role in human diet. The replacement of sugars in food with artificial sweeteners is common and is a general approach to prevent cavities, obesity and ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq917
更新日期:2011-01-01 00:00:00
abstract::We have cloned and sequenced the lasR gene, which is involved in the transcriptional activation of several pathogenic factors, from Pseudomonas aeruginosa IFO3455 and PA103. These clones were predicted to be an open reading frame of 239 amino acids as reported for the PAO1 strain. There is only a single base change re...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.18.3706
更新日期:1994-09-11 00:00:00
abstract::Oligo(dG).oligo(dC)- or short poly(dG).poly(dC)-containing fragments were enriched and cloned by means of Mg2+-dependent triplex affinity capture and subsequent cloning procedures. A library constructed after three cycles of enrichment showed that approximately 80% of the clones in the supercoiled form formed a comple...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/25.9.1701
更新日期:1997-05-01 00:00:00
abstract::The speed of the new DNA sequencing techniques has created a need for computer programs to handle the data produced. This paper describes simple programs designed specifically for use by people with little or no computer experience. The programs are for use on small computers and provide facilities for storage, editin...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/4.11.4037
更新日期:1977-11-01 00:00:00
abstract::The hypoxanthine-guanine phosphoribosyltransferase (HGPRT) enzyme of Trypanosoma brucei and related parasites provides a rational target for the treatment of African sleeping sickness and several other parasitic diseases. To characterize the T. brucei HGPRT enzyme in detail, the T. brucei hgprt was isolated within a 4...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/21.23.5431
更新日期:1993-11-25 00:00:00
abstract::Yaf9 is an integral part of the NuA4 acetyltransferase and the SWR1 chromatin remodeling complexes. Here, we show that Yaf9 associates with acetylated histone H3 with high preference for H3K27ac. The crystal structure of the Yaf9 YEATS domain bound to the H3K27ac peptide reveals that the sequence C-terminal to K27ac s...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx1151
更新日期:2018-01-09 00:00:00
abstract::Bacterial genomics has revolutionized our understanding of the microbial tree of life; however, mapping and visualizing the distribution of functional traits across bacteria remains a challenge. Here, we introduce AnnoTree-an interactive, functionally annotated bacterial tree of life that integrates taxonomic, phyloge...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz246
更新日期:2019-05-21 00:00:00
abstract::Using a genetic selection for suppressors of a UGA nonsense mutation in trpA, we have isolated a G to A transition mutation at position 1491 in the decoding region of 16S rRNA. This suppressor displayed no codon specificity, suppressing UGA, UAG and UAA nonsense mutations and +1 and -1 frameshift mutations in lacZ. Su...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/23.21.4234
更新日期:1995-11-11 00:00:00
abstract::EMAGE (http://genex.hgu.mrc.ac.uk/Emage/database) is a database of in situ gene expression patterns in the developing mouse embryo. Domains of expression from raw data images are spatially integrated into a set of standard 3D virtual mouse embryos at different stages of development, allowing data interrogation by spat...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm938
更新日期:2008-01-01 00:00:00
abstract::Gene trap vectors developed for genome-wide mutagenesis can be used to study factors governing the expression of exons inserted throughout the genome. For example, entrapment vectors consisting of a partial 3'-terminal exon [i.e. a neomycin resistance gene (Neo), a poly(A) site, but no 3' splice site] were typically e...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh604
更新日期:2004-05-20 00:00:00
abstract::Our web server, PIZSA (http://cospi.iiserpune.ac.in/pizsa), assesses the likelihood of protein-protein interactions by assigning a Z Score computed from interface residue contacts. Our score takes into account the optimal number of atoms that mediate the interaction between pairs of residues and whether these contacts...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz368
更新日期:2019-07-02 00:00:00
abstract::DNA polymerase beta (polbeta), a member of the X family of DNA polymerases, is the major polymerase in the base excision repair pathway. Using in vitro selection, we obtained RNA aptamers for polbeta from a variable pool of 8 x 10(12) individual RNA sequences containing 30 random nucleotides. A total of 60 individual ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl326
更新日期:2006-05-17 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
pub_type: 杂志文章
doi:10.1093/nar/4.3.603
更新日期:1977-03-01 00:00:00
abstract::The detailed principles of the hierarchical folding of eukaryotic chromosomes have been revealed during the last two decades. Along with structures composing three-dimensional (3D) genome organization (chromatin compartments, topologically associating domains, chromatin loops, etc.), the molecular mechanisms that are ...
journal_title:Nucleic acids research
pub_type: 杂志文章,评审
doi:10.1093/nar/gkaa261
更新日期:2020-05-21 00:00:00
abstract::Scanning force microscopy was used to examine DNA condensates prepared with varying stoichiometries of lipospermine or polyethylenimine in physiological solution. For the first time, individual DNA strands were clearly visualized in incomplete condensates without drying. Using lipospermine at sub-saturating concentrat...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/25.15.3095
更新日期:1997-08-01 00:00:00