Abstract:
:Accumulation of replicative intermediates of the bacteriophage phi X174 was observed in E. coli C infected cells when phage DNA methylation has been inhibited by nicotinamide or when cells were infected with a temperature-sensitive mutant in gene A. Analysis of the accumulating replicative intermediates by electron microscopy revealed that these molecules are composed of double-stranded DNA rings with multiple-genome length single-stranded "tails". These results suggest that the single 5-methylcytosine residue present in the phage DNA serves as a recognition site for the gene A protein mediating the excision of one-genome long phage DNA. This excision process is oligatory for the final maturation of the phage.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Friedman J,Friedmann A,Razin Adoi
10.1093/nar/4.10.3483keywords:
subject
Has Abstractpub_date
1977-10-01 00:00:00pages
3483-96issue
10eissn
0305-1048issn
1362-4962journal_volume
4pub_type
杂志文章abstract::Mechanisms that preserve genome integrity are highly important during the normal life cycle of human cells. Loss of genome protective mechanisms can lead to the development of diseases such as cancer. Checkpoint kinases function in the cellular surveillance pathways that help cells to cope with DNA damage. Importantly...
journal_title:Nucleic acids research
pub_type: 杂志文章,评审
doi:10.1093/nar/gkr697
更新日期:2012-01-01 00:00:00
abstract::The CD spectra of twelve DNA restriction fragments ranging in size from 12 to 360 base pairs are reported. Since the sequences of these fragments are known, it is possible to calculate their CD spectra from a set of nearest neighbor contributions derived from a combination of synthetic polydeoxyribonucleotides. While ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/9.13.3029
更新日期:1981-07-10 00:00:00
abstract::Fifteen years elapsed between the discovery of the double helix (1953) and the first DNA sequencing (1968). Modern DNA sequencing began in 1977, with development of the chemical method of Maxam and Gilbert and the dideoxy method of Sanger, Nicklen and Coulson, and with the first complete DNA sequence (phage X174), whi...
journal_title:Nucleic acids research
pub_type: 历史文章,杂志文章
doi:10.1093/nar/gkm688
更新日期:2007-01-01 00:00:00
abstract::The CABS-fold web server provides tools for protein structure prediction from sequence only (de novo modeling) and also using alternative templates (consensus modeling). The web server is based on the CABS modeling procedures ranked in previous Critical Assessment of techniques for protein Structure Prediction competi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt462
更新日期:2013-07-01 00:00:00
abstract::The Structural Classification of Proteins (SCOP) database provides a detailed and comprehensive description of the relationships of known protein structures. The classification is on hierarchical levels: the first two levels, family and superfamily, describe near and distant evolutionary relationships; the third, fold...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.1.257
更新日期:2000-01-01 00:00:00
abstract::The European Nucleotide Archive (ENA; https://www.ebi.ac.uk/ena), provided by the European Molecular Biology Laboratory's European Bioinformatics Institute (EMBL-EBI), has for almost forty years continued in its mission to freely archive and present the world's public sequencing data for the benefit of the entire scie...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa1028
更新日期:2021-01-08 00:00:00
abstract::A major goal of system biology is the characterization of transcription factors and microRNAs (miRNAs) and the transcriptional programs they regulate. We present Allegro, a method for de-novo discovery of cis-regulatory transcriptional programs through joint analysis of genome-wide expression data and promoter or 3' U...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkn1064
更新日期:2009-04-01 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::Members of the basic helix-loop-helix (bHLH) family of transcription factors regulate a wide array of developmental processes in many cell types, including cell fate specification, differentiation and morphogenesis. Our studies describe the cloning of a gene from the nematode Caenorhabditis elegans that is closely rel...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/29.21.4423
更新日期:2001-11-01 00:00:00
abstract::Software has been developed to assist RNA fingerprinting analysis. One program generates, from a DNA sequence data file, the oligonucleotides resulting from digestion of an RNA transcript labeled with any specified nucleotide(s). Oligonucleotides are sorted according to their position on the fingerprint. Expected mola...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/16.5.1799
更新日期:1988-03-11 00:00:00
abstract::Exposure to many endogenous and exogenous agents can give rise to DNA alkylation, which constitutes a major type of DNA damage. Among the DNA alkylation products, alkyl phosphotriesters have relatively high frequencies of occurrence and are resistant to repair in mammalian tissues. However, little is known about how t...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky140
更新日期:2018-05-04 00:00:00
abstract::The variation of the proton chemical shifts due to the formation intermolecular hydrogen bonds is computed for a number of complexes which can be formed between the bases of the nucleic acids. The shifts expected for the isolated base pairs, in particular for the G-N1 H, T(or U)-N3H protons and the protons of the amin...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/4.1.99
更新日期:1977-01-01 00:00:00
abstract::Post-translational modifications contribute to the spliceosome dynamics by facilitating the physical rearrangements of the spliceosome. Here, we report USP15, a deubiquitinating enzyme, as a regulator of protein-protein interactions for the spliceosome dynamics. We show that PRP31, a component of U4 snRNP, is modified...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw1365
更新日期:2017-05-05 00:00:00
abstract::MHCPEP is a curated database comprising over 6000 peptide sequences known to bind MHC molecules. Entries are compiled from published reports as well as from direct submissions of experimental data. Each entry contains peptide sequence, MHC specificity and when available, experimental method, observed activity, binding...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.1.242
更新日期:1996-01-01 00:00:00
abstract::DNA synthesis is a fundamental requirement for cell proliferation and DNA repair, but no single method can identify the location, direction and speed of replication forks with high resolution. Mammalian cells have the ability to incorporate thymidine analogs along with the natural A, T, G and C bases during DNA synthe...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa517
更新日期:2020-09-04 00:00:00
abstract::Many infectious diseases are caused by viral infections, and in particular by RNA viruses such as MERS, Ebola and Zika. To understand viral disease, detection and identification of these viruses are essential. Although PCR is widely used for rapid virus identification due to its low cost and high sensitivity and speci...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw1095
更新日期:2017-01-04 00:00:00
abstract::Post-transcriptional methylation of ribose at position O-2' is one of the most common and conserved types of RNA modification. Details of the functional roles of these methylations are far from clear, although in tRNA they are involved at position 34 in regulation of codon recognition and in eukaryotic rRNAs they are ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.18.e20
更新日期:1999-09-15 00:00:00
abstract::This work describes the organization, at the nucleotide sequence level, of genes flanking the junctions of the large single copy regions and the inverted repeats of Spinacia oleracea (spinach) and Nicotiana debneyi chloroplast DNAs. In both genomes, trnH1, the gene for tRNA-His(GUG) is located at the extremity of the ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/12.16.6547
更新日期:1984-08-24 00:00:00
abstract::YB-1 is a universal major protein of cytoplasmic mRNPs, a member of the family of multifunctional cold shock domain proteins (CSD proteins). Depending on its amount on mRNA, YB-1 stimulates or inhibits mRNA translation. In this study, we have analyzed complexes formed in vitro at various YB-1 to mRNA ratios, including...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh889
更新日期:2004-10-19 00:00:00
abstract::Both Streptomyces lividans and Streptomyces avermitilis encode similar systems of post-replicative DNA modification which act site-specifically on closely opposed guanines on either strand. The modifications can be detected since they react in vitro with an oxidative derivative of Tris, resulting in strand cleavage. P...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/26.14.3364
更新日期:1998-07-15 00:00:00
abstract::The D. melanogaster Adh gene is transcribed from two different promoters; a proximal (larval) promoter is active during late embryonic and larval stages, and a distal (adult) promoter is active primarily in third instar larvae and in adult flies (1). Genetic analyses suggest that several species of the mulleri subgrou...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/13.19.6899
更新日期:1985-10-11 00:00:00
abstract::The 'druggable genome' encompasses several protein families, but only a subset of targets within them have attracted significant research attention and thus have information about them publicly available. The Illuminating the Druggable Genome (IDG) program was initiated in 2014, has the goal of developing experimental...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw1072
更新日期:2017-01-04 00:00:00
abstract::Alu elements have repeatedly been found involved in gene rearrangements in humans. Although these elements have been suggested to stimulate gene rearrangements, sparse information is available for the possible mechanism(s) of these events. Here we present a compilation of Alu elements that have been involved in recomb...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/23.2.256
更新日期:1995-01-25 00:00:00
abstract::The intragenic control regions of a eukaryotic tRNA gene have been examined by transcribing mutant forms of a Drosophila tRNAArg gene either by injection into the nucleus of Xenopus oocytes or in extracts prepared from isolated oocyte nuclei. These experiments demonstrate that the selection of the transcription initia...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/11.24.8677
更新日期:1983-12-20 00:00:00
abstract::5' Terminal cap structures of hnRNA have been characterized and the extent of capping determined as a function of embryonic development. Sea urchin embryo hnRNA contains only the type-1 cap, m7GpppNmpNp, with the type-2 cap, which has a 2'-0-methylated subpenultimate nucleotide, being associated only with stable small...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/6.6.2307
更新日期:1979-01-01 00:00:00
abstract::With the development of High-Throughput Sequencing (HTS) thousands of human genomes have now been sequenced. Whenever different studies analyze the same genome they usually agree on the amount of single-nucleotide polymorphisms, but differ dramatically on the number of insertion and deletion variants (indels). Further...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv677
更新日期:2015-09-03 00:00:00
abstract::In prokaryotes and archaea transfer ribonucleic acid (tRNA) stability as well as cellular UV protection relies on the post-transcriptional modification of uracil at position 8 (U8) of tRNAs by the 4-thiouridine synthetase ThiI. Here, we report three crystal structures of ThiI from Thermotoga maritima in complex with a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku249
更新日期:2014-06-01 00:00:00
abstract::To develop structural modifications of dNTPs that are compatible with Taq DNA polymerase activity, we synthesized eight dUTP derivatives conjugated with Cy3 or Cy5 dye analogues that differed in charge and charge distribution throughout the fluorophore. These dUTP derivatives and commercial Cy3- and Cy5-dUTP were stud...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky247
更新日期:2018-07-06 00:00:00
abstract::The SPARC gene 5'flanking sequence has been shown to contain enhancer elements, but also negative control elements immediately upstream of the enhancer elements. Although these 5'enhancer elements are active in F9 and PYS-2 cells, their activities are nullified by the 5'repressor activity. In the present study we have...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/25.15.3169
更新日期:1997-08-01 00:00:00
abstract::The dominant kanr marker gene plays an important role in gene disruption experiments in budding yeast, as this marker can be used in a variety of yeast strains lacking the conventional yeast markers. We have developed a loxP-kanMX-loxP gene disruption cassette, which combines the advantages of the heterologous kanr ma...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.13.2519
更新日期:1996-07-01 00:00:00