EcoCyc: a comprehensive database resource for Escherichia coli.

abstract：:The investigation of RNA structure, dynamics and biological function often requires the site-specific incorporation of non-natural moieties. Here we describe the functionalization of RNA transcripts by aldehyde-hydrazine chemistry using a simple initiator nucleotide that carries an acetal-protected aldehyde function. ...

journal_title：Nucleic acids research

authors： Pfander S,Fiammengo R,Kirin SI,Metzler-Nolte N,Jäschke A

更新日期：2007-01-01 00:00:00

abstract：:Horizontal gene transfer (HGT) is a major force in microbial evolution. Previous studies have suggested that a variety of factors, including restricted recombination and toxicity of foreign gene products, may act as barriers to the successful integration of horizontally transferred genes. This study identifies an addi...

journal_title：Nucleic acids research

authors： Tuller T,Girshovich Y,Sella Y,Kreimer A,Freilich S,Kupiec M,Gophna U,Ruppin E

更新日期：2011-06-01 00:00:00

abstract：:Nucleotide excision DNA repair is mechanistically conserved across all kingdoms of life. In prokaryotes, this multi-enzyme process requires six proteins: UvrA-D, DNA polymerase I and DNA ligase. To examine how UvrC locates the UvrB-DNA pre-incision complex at a site of damage, we have labeled UvrB and UvrC with differ...

journal_title：Nucleic acids research

authors： Hughes CD,Wang H,Ghodke H,Simons M,Towheed A,Peng Y,Van Houten B,Kad NM

更新日期：2013-05-01 00:00:00

abstract：:We have previously shown that Y box-binding protein-1 (YB-1) binds preferentially to cisplatin-modified Y box sequences. Based on structural and biochemical data, we predicted that this protein binds single-stranded nucleic acids. In the present study we confirmed the prediction and also discovered some unexpected fun...

journal_title：Nucleic acids research

authors： Izumi H,Imamura T,Nagatani G,Ise T,Murakami T,Uramoto H,Torigoe T,Ishiguchi H,Yoshida Y,Nomoto M,Okamoto T,Uchiumi T,Kuwano M,Funa K,Kohno K

更新日期：2001-03-01 00:00:00

abstract：:A feature of Haemophilus influenzae genomes is the presence of several loci containing tracts of six or more identical tetranucleotide repeat units. These repeat tracts are unstable and mediate high frequency, reversible alterations in the expression of surface antigens. This process, termed phase variation (PV), enab...

journal_title：Nucleic acids research

authors： Bayliss CD,Sweetman WA,Moxon ER

更新日期：2005-01-14 00:00:00

abstract：:Toxic metals are part of our environment, and undue exposure to them leads to a variety of pathologies. In response, most organisms adapt their metabolism and have evolved systems to limit this toxicity and to acquire tolerance. Ribosome biosynthesis being central for protein synthesis, we analyzed in yeast the effect...

journal_title：Nucleic acids research

authors： Zhou L,Le Roux G,Ducrot C,Chédin S,Labarre J,Riva M,Carles C

更新日期：2013-07-01 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

authors： Niemeyer CM,Adler M,Pignataro B,Lenhert S,Gao S,Chi L,Fuchs H,Blohm D

更新日期：1999-12-01 00:00:00

abstract：:The expression of the nicotinic acetylcholine receptor alpha 2 subunit gene is highly restricted to the Spiriform lateralis nucleus of the Chick diencephalon. As a first step toward understanding the molecular mechanism underlying this regulation, we have investigated the structural and regulatory properties of the 5'...

journal_title：Nucleic acids research

authors： Bessis A,Savatier N,Devillers-Thiéry A,Bejanin S,Changeux JP

更新日期：1993-05-11 00:00:00

abstract：:The reaction of the tetranucleotide, pA-A(2)-A, with 2'(3')-0-(alpha-methoxyethyl)uridine 5'-diphosphate, Mg(2+) ions, and M. luteus polynucleotide phosphorylase followed by mild acid treatment to remove the blocking groups results in a 49% yield of the desired single addition product, pA-A(3)-U, together with smaller...

journal_title：Nucleic acids research

authors： Sninsky JJ,Bennett GN,Gilham PT

更新日期：1974-12-01 00:00:00

abstract：:The Retinol-Binding Protein (RBP) is expressed primarily in the liver. The regulatory elements involved in its tissue-specific expression have been identified and mapped to the 5' flanking region of the RBP gene. In this paper heterokaryons and somatic cell-hybrids have been produced and analysed in order to demonstra...

journal_title：Nucleic acids research

authors： Faraonio R,Musy M,Colantuoni V

更新日期：1990-12-25 00:00:00

abstract：:The pac1+ gene of the fission yeast Schizosaccharomyces pombe is essential for viability and its overexpression induces sterility and suppresses mutations in the pat1+ and snm1+ genes. The pac1+ gene encodes a protein that is structurally similar to RNase III from Escherichia coli, but its normal function is unknown. ...

journal_title：Nucleic acids research

authors： Rotondo G,Frendewey D

更新日期：1996-06-15 00:00:00

abstract：:The tissue specificity of mitochondrial tRNA mutations remains largely elusive. In this study, we demonstrated the deleterious effects of tRNAThr 15927G>A mutation that contributed to pathogenesis of coronary artery disease. The m.15927G>A mutation abolished the highly conserved base-pairing (28C-42G) of anticodon ste...

journal_title：Nucleic acids research

authors： Jia Z,Zhang Y,Li Q,Ye Z,Liu Y,Fu C,Cang X,Wang M,Guan MX

更新日期：2019-02-28 00:00:00

abstract：:The thyroid hormone receptor alpha (THRA or c-erbA-1) gene belongs to a family of genes which encode nuclear receptors for various hydrophobic ligands such as steroids, vitamin D, retinoic acid and thyroid hormones. These receptors are composed of several domains important for hormone-binding, DNA-binding, dimerizatio...

journal_title：Nucleic acids research

authors： Laudet V,Begue A,Henry-Duthoit C,Joubel A,Martin P,Stehelin D,Saule S

更新日期：1991-03-11 00:00:00

abstract：:The hexametric T7 helicase (gp4) adopts a spiral lock-washer form and encircles a coil-like DNA (tracking) strand with two nucleotides bound to each subunit. However, the chemo-mechanical coupling mechanism in unwinding has yet to be elucidated. Here, we utilized nanotensioner-enhanced Förster resonance energy transfe...

journal_title：Nucleic acids research

authors： Ma JB,Chen Z,Xu CH,Huang XY,Jia Q,Zou ZY,Mi CY,Ma DF,Lu Y,Zhang HD,Li M

更新日期：2020-04-06 00:00:00

abstract：:A filter binding assay was developed that allows measurement of specific binding of trp repressor to operator DNA. The most important feature of this procedure is the concentration and type of salt present in the binding buffer. Using this assay the dissociation constant of the repressor-operator complex was determine...

journal_title：Nucleic acids research

authors： Klig LS,Crawford IP,Yanofsky C

更新日期：1987-07-10 00:00:00

abstract：:Radioactive iodine has been used to probe the relative reactivities of nucleosomal H4 tyrosine residues under various conditions of subphysiological ionic strength. We observe that tyrosine 72 of H4, which is not reactive over the range 20-150 mM NaCl, becomes the predominant site of iodination within H4 when nucleoso...

journal_title：Nucleic acids research

authors： Burch JB,Martinson HG

更新日期：1981-09-11 00:00:00

abstract：:From a library of nucleic acid molecules, which are randomized in parts of their sequence, unique sequence variants can be selected for specific properties. The planning of such an in vitro selection experiment requires some consideration regarding how much DNA template or RNA transcript should be used initially. The ...

journal_title：Nucleic acids research

authors： Tabler M,Benos P,Dörr M

更新日期：1996-09-01 00:00:00

abstract：:Defined DNA substrates containing discrete abasic sites or paired abasic sites set 1, 3, 5 and 7 bases apart on opposite strands were constructed to examine the reactivity of S1, mung bean and P1 nucleases towards abasic sites. None of the enzymes acted on the substrate containing discrete abasic sites. Under conditio...

journal_title：Nucleic acids research

authors： Chaudhry MA,Weinfeld M

更新日期：1995-10-11 00:00:00

abstract：:The RNA of a deleted strain (lacking Src gene) of an avian sarcoma virus (ASV) was examined by a newly developed immunoelectron microscopic procedure which uses anti-nucleotide antibodies as probes. After denaturation of the RNA and reaction with a high affinity, highly specific anti-7-methylguanosine-5'-phosphate (an...

journal_title：Nucleic acids research

authors： Castleman H,Meredith RD,Erlanger BF

更新日期：1980-10-10 00:00:00

abstract：:The majority of genome-wide association study (GWAS) risk variants reside in non-coding DNA sequences. Understanding how these sequence modifications lead to transcriptional alterations and cell-to-cell variability can help unraveling genotype-phenotype relationships. Here, we describe a computational method, dubbed C...

journal_title：Nucleic acids research

authors： Li S,Alvarez RV,Sharan R,Landsman D,Ovcharenko I

更新日期：2017-03-17 00:00:00

abstract：:In HIV-1 infection, Tat acts at least in part to control transcriptional elongation by overcoming premature transcriptional termination. In some other genes this process is governed by DNA elements called attenuators in concert with cellular transcription factors. To understand the action of Tat more fully and explore...

journal_title：Nucleic acids research

authors： Greenberg ME,Mathews MB

更新日期：1997-12-15 00:00:00

abstract：:The PRISM web server enables fast and accurate prediction of protein-protein interactions (PPIs). The prediction algorithm is knowledge-based. It combines structural similarity and accounts for evolutionary conservation in the template interfaces. The predicted models are stored in its repository. Given two protein st...

journal_title：Nucleic acids research

authors： Baspinar A,Cukuroglu E,Nussinov R,Keskin O,Gursoy A

更新日期：2014-07-01 00:00:00

abstract：:Influenza A viruses are hosted by numerous avian and mammalian species, which have shaped their evolution into distinct lineages worldwide. The viral genome consists of eight RNA segments that are frequently exchanged between different viruses via a process known as genetic reassortment. A complete genotype nomenclatu...

journal_title：Nucleic acids research

authors： Lu G,Rowley T,Garten R,Donis RO

更新日期：2007-07-01 00:00:00

abstract：:The base pairing properties of oligonucleotide duplexes containing 8-aza-7-deaza-2'-deoxyisoguanosine, its 7-bromo or its 7-iodo derivative are described. The nucleosides were synthesized on a convergent route, protected and converted into phosphoramidites. Oligonucleotides were prepared on a solid-phase and were hybr...

journal_title：Nucleic acids research

authors： Seela F,Kröschel R

更新日期：2003-12-15 00:00:00

abstract：:Short interfering RNAs (siRNAs) are valuable reagents for sequence-specific inhibition of gene expression via the RNA interference (RNAi) pathway. Although it has been proposed that the relative thermodynamic stability at the 5'-ends of siRNAs plays a crucial role in siRNA strand selection, we demonstrate here that a ...

journal_title：Nucleic acids research

authors： Sano M,Sierant M,Miyagishi M,Nakanishi M,Takagi Y,Sutou S

更新日期：2008-10-01 00:00:00

abstract：:Here we describe a method of labelling short oligonucleotide probes with enzyme without purification or chemical modifications. Biotinylated oligonucleotides as short as 10 nt are coupled with streptavidin-conjugated enzyme, hybridised and detected with enzyme-triggered chemiluminescence. The detection of hybridisatio...

journal_title：Nucleic acids research

authors： Guerasimova A,Ivanov I,Lehrach H

更新日期：1999-01-15 00:00:00

abstract：:The U1 snRNP-specific 70K protein is one of the few snRNP proteins from higher eukaryotic cells that is phosphorylated in vivo (1,2). Immunoaffinity purified spliceosomal snRNPs (U1, U2, U5, and U4/U6) were tested for their ability to phosphorylate in vitro the U1-specific 70K protein. An snRNP-associated kinase activ...

journal_title：Nucleic acids research

authors： Woppmann A,Will CL,Kornstädt U,Zuo P,Manley JL,Lührmann R

更新日期：1993-06-25 00:00:00

abstract：:A key complication in comparative genomics for reliable gene function prediction is the existence of duplicated genes. To study the effect of gene duplication on function prediction, we analyze orthologs between pairs of genomes where in one genome the orthologous gene has duplicated after the speciation of the two ge...

journal_title：Nucleic acids research

authors： Notebaart RA,Huynen MA,Teusink B,Siezen RJ,Snel B

更新日期：2005-10-27 00:00:00

abstract：:Chromatin fragments released from intact Friend erythroleukemia cell nuclei during limited incubation with micrococcal nuclease, DNase II or DNase I were analyzed to determine the distribution of DNA methyltransferase in chromatin. The enzyme was released in a free form when internucleosomal DNA was digested with micr...

journal_title：Nucleic acids research

authors： Creusot F,Christman JK

更新日期：1981-10-24 00:00:00

abstract：:Gramene (http://www.gramene.org) is a knowledgebase for comparative functional analysis in major crops and model plant species. The current release, #54, includes over 1.7 million genes from 44 reference genomes, most of which were organized into 62,367 gene families through orthologous and paralogous gene classificat...

journal_title：Nucleic acids research

authors： Tello-Ruiz MK,Naithani S,Stein JC,Gupta P,Campbell M,Olson A,Wei S,Preece J,Geniza MJ,Jiao Y,Lee YK,Wang B,Mulvaney J,Chougule K,Elser J,Al-Bader N,Kumari S,Thomason J,Kumar V,Bolser DM,Naamati G,Tapanari E,Fo

更新日期：2018-01-04 00:00:00