Abstract:
:Short DNA sequence motifs have been identified in viral and cellular enhancers which represent the binding sites for a variety of trans- acting factors. One such HeLa cell factor, EBP1, has been purified and shown to bind to sequences in the SV40 enhancer. The PRDII element in the human beta-interferon gene regulatory element (IRE) shows strong sequence similarity to the EBP1 binding site in the SV40 enhancer. We demonstrate here that EBP1 binds to its sites in the SV40 enhancer and IRE in a similar manner, making base specific contacts over one complete turn of the DNA double helix. Mutational analysis of the EBP1 sites in the IRE and SV40 enhancer has identified the DNA sequence requirements necessary for specific EBP1/DNA complex formation. In addition, 34 DNA sequences related to the EBP1 binding site were analysed for their ability to bind EBP1. Sequences constituting high affinity binding sites possess the sequence 5'-GG(N)6CC-3'. Single base pair changes in the region between the conserved Gs and Cs can generally be tolerated although it is clear that these intervening bases contribute to binding affinity. Mutations in the recognition site which could lead to gross structural changes in the DNA abolish EBP1 binding.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Clark L,Hay RTdoi
10.1093/nar/17.2.499subject
Has Abstractpub_date
1989-01-25 00:00:00pages
499-516issue
2eissn
0305-1048issn
1362-4962journal_volume
17pub_type
杂志文章abstract::The pDd56 mRNA sequence is highly enriched in prestalk over prespore cells and is inducible by DIF, the putative Dictyostelium stalk-specific morphogen. We show that the pDd56 gene is composed of forty one copies of a twenty four amino acid, cysteine rich repeat. This is highly homologus to a repeat which we have prev...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/15.18.7463
更新日期:1987-09-25 00:00:00
abstract::A UCSD Pascal program was developed which can analyze nucleic acid dot matrices of up to 9500 X 9500 in size on the Apple II computer. Although matrices of such size consume large amounts of computer memory, this program minimizes these problems by analyzing only small strips of the matrix at a time, and then transfer...
journal_title:Nucleic acids research
pub_type: 杂志文章
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq1044
更新日期:2011-03-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl1013
更新日期:2007-01-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx985
更新日期:2018-01-04 00:00:00
abstract::Therapeutic oligonucleotides are often modified using the phosphorothioate (PS) backbone modification which enhances stability from nuclease mediated degradation. However, substituting oxygen in the phosphodiester backbone with sulfur introduce chirality into the backbone such that a full PS 16-mer oligonucleotide is ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa031
更新日期:2020-02-28 00:00:00
abstract::The proposition that the 2-amino group of guanine plays a critical role in determining how antibiotics recognise their binding sites in DNA has been tested by relocating it, using tyrT DNA derivative molecules substituted with inosine plus 2,6-diaminopurine (DAP). Irrespective of their mode of interaction with DNA, su...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/23.6.885
更新日期:1995-03-25 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr655
更新日期:2012-01-01 00:00:00
abstract::High mobility group protein B1 (HMGB1) binds to the internucleosomal linker DNA in chromatin and abuts the nucleosome. Bending and untwisting of the linker DNA results in transmission of strain to the nucleosome core, disrupting histone/DNA contacts. An interaction between H3 and HMGB1 has been reported. Here we confi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt950
更新日期:2014-01-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.18.7175
更新日期:1986-09-25 00:00:00
abstract::Human foamy or spuma virus (HFV) codes for a distinct set of pol gen products. To determine the minimal requirements for the HFV enzymatic activities, defined residues of the reverse transcriptase (RT) and ribo-nuclease H (RNase H) domain of the HFV pol gene were mutated by site-specific PCR mutagenesis. The mutant ge...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/23.14.2621
更新日期:1995-07-25 00:00:00
abstract::Human immunodeficiency virus-1 (HIV-1) leader RNA, which contains double-stranded regions due to inverted repeats, was shown to activate the dsRNA-dependent enzymes associated with the interferon system. HIV-1 leader RNA produced in vitro using SP6 RNA polymerase was characterized using probes for antisense and sense-...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/17.3.969
更新日期:1989-02-11 00:00:00
abstract::Targeted modulation of gene expression represents a valuable approach to understand the mechanisms governing gene regulation. In a therapeutic context, it can be exploited to selectively modify the aberrant expression of a disease-causing gene or to provide the target cells with a new function. Here, we have establish...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky171
更新日期:2018-05-18 00:00:00
abstract::Therapeutic small interfering RNAs (siRNAs) are composed of chemically modified nucleotides, which enhance RNA stability and increase affinity in Watson-Crick base pairing. However, the precise fate of such modified nucleotides once the siRNA is degraded within the cell is unknown. Previously, we demonstrated that deo...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt120
更新日期:2013-04-01 00:00:00
abstract::Three clones of non-repetitive sequences and six clones containing repetitive sequences were obtained from micronuclear DNA of Tetrahymena thermophila. All the non-repetitive and three repetitive sequences had the same organization in micro- and macronuclear DNAs as revealed by blot hybridization. On the other hand, t...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/10.14.4279
更新日期:1982-07-24 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt416
更新日期:2013-07-01 00:00:00
abstract::Cell-free extracts employed as chromatin assembly systems contain a myriad of proteins, polyanions and nucleic acids. The roles of ATP, MgCl2 and other cofactors in the catalysis of nucleosome formation by the Xenopus laevis oocyte S-150 have yet to be established unequivocally. In this study we examine the influence ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/20.4.889
更新日期:1992-02-25 00:00:00
abstract::A peculiar phenomenon is observed in several adenovirus type 2 or 5 (Ad2 or Ad5) transformed cell lines: the right hand and left hand terminal regions of the viral genome present in the viral DNA insertions of these cell lines are found to be linked together. A large part of the viral DNA insertion present in the Ad5 ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/10.7.2189
更新日期:1982-04-10 00:00:00
abstract::Genome browsers are widely used for individually exploring various types of genomic data. A handful of genome browsers offer limited tools for collaboration among multiple users. Here, we describe PBrowse, an integrated real-time collaborative genome browser that enables multiple users to simultaneously view and acces...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw1358
更新日期:2017-05-19 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl1036
更新日期:2007-01-01 00:00:00
abstract::The mammalian target of rapamycin (mTOR) is a critical regulator of cell growth, integrating multiple signalling cues and pathways. Key among the downstream activities of mTOR is the control of the protein synthesis machinery. This is achieved, in part, via the co-ordinated regulation of mRNAs that contain a terminal ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa1189
更新日期:2021-01-11 00:00:00
abstract::The COXPRESdb (http://coxpresdb.jp) provides gene coexpression relationships for animal species. Here, we report the updates of the database, mainly focusing on the following two points. For the first point, we added RNAseq-based gene coexpression data for three species (human, mouse and fly), and largely increased th...
journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2015-01-01 00:00:00
abstract::The RecQL4 helicase is involved in the maintenance of genome integrity and DNA replication. Mutations in the human RecQL4 gene cause the Rothmund-Thomson, RAPADILINO and Baller-Gerold syndromes. Mouse models and experiments in human and Xenopus have proven the N-terminal part of RecQL4 to be vital for cell growth. We ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks591
更新日期:2012-09-01 00:00:00
abstract::A novel program suite was implemented for the functional interpretation of high-throughput gene expression data based on the identification of Gene Ontology (GO) nodes. The focus of the analysis lies on the interpretation of microarray data from prokaryotes. The three well established statistical methods of the thresh...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl329
更新日期:2006-07-01 00:00:00
abstract::DNA from healthy Malaysian newborns was studied on gene maps after digestion with different restriction endonucleases. Of 65 newborns, two were found to be carriers of two different variants of triplicated alpha-globin loci. In variant no. 1, found in an Malay, the three alpha-globin genes are in an elongated DNA frag...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/9.15.3707
更新日期:1981-08-11 00:00:00
abstract::Egr-1 is a murine zinc finger encoding cDNA whose expression is modulated by a variety of ligand-receptor interactions and is often coregulated with c-fos (1). This study reports the isolation of a mouse Egr-1 genomic clone, its intron-exon structure, and 935 bp of 5' flanking sequence. The gene spans about 3.8 kb and...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/16.18.8835
更新日期:1988-09-26 00:00:00
abstract::In addition to maintaining the GenBank(R) nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides analysis and retrieval resources for the data in GenBank and other biological data available through NCBI's web site. NCBI resources include Entrez, the Entrez Programming Utiliti...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm1000
更新日期:2008-01-01 00:00:00
abstract::Cloned DNA from the EcoRI J fragment of EBV has been used as template for in vitro transcription experiments using cell-free extracts prepared from HeLa or KB cells. Two EBV specific RNAs each about 175 bases in length were synthesised and nuclease 51 mapping experiments determined that these in vitro products corresp...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/10.11.3407
更新日期:1982-06-11 00:00:00
abstract::By in vivo DMS footprint and reporter gene analyses we identified two transcription factor binding sites in the human c-sis/PDGF B gene promoter. The low basal activity of the PDGF B promoter in HeLa and undifferentiated K562 cells, which express low PDGF B mRNA levels, and in PC3 cells, which express a high PDGF B mR...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/23.7.1119
更新日期:1995-04-11 00:00:00
abstract::Transposition of Saccharomyces cerevisiae Ty1 retroelements has been shown to involve reverse transcription in intracytoplasmic virus-like particles (Ty-VLPs). Ty DNA present in the particles specified by Ty1-H3 element was found to consist of the full-length genomic DNA as well as incomplete cDNAs mainly of plus pola...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/21.15.3513
更新日期:1993-07-25 00:00:00