The ATP-mediated formation of the YgjD-YeaZ-YjeE complex is required for the biosynthesis of tRNA t6A in Escherichia coli.

abstract：:Most mutations in cancer genomes occur in the non-coding regions with unknown impact on tumor development. Although the increase in the number of cancer whole-genome sequences has revealed numerous putative non-coding cancer drivers, their information is dispersed across multiple studies making it difficult to underst...

journal_title：Nucleic acids research

authors： Liu EM,Martinez-Fundichely A,Bollapragada R,Spiewack M,Khurana E

更新日期：2021-01-08 00:00:00

abstract：:GenBank® (https://www.ncbi.nlm.nih.gov/genbank/) is a comprehensive, public database that contains 9.9 trillion base pairs from over 2.1 billion nucleotide sequences for 478 000 formally described species. Daily data exchange with the European Nucleotide Archive and the DNA Data Bank of Japan ensures worldwide coverag...

journal_title：Nucleic acids research

authors： Sayers EW,Cavanaugh M,Clark K,Pruitt KD,Schoch CL,Sherry ST,Karsch-Mizrachi I

更新日期：2021-01-08 00:00:00

abstract：:The U2 snRNP complex contains two specific proteins, U2B" and U2A'. We have analysed the interaction of U2A' with U2B" and with U2 RNA. U2A' can form an weak but detectable RNA-protein complex with U2 RNA and a stable protein complex with U2B". This protein-protein complex binds efficiently and specifically to U2 RNA....

journal_title：Nucleic acids research

authors： Boelens W,Scherly D,Beijer RP,Jansen EJ,Dathan NA,Mattaj IW,van Venrooij WJ

更新日期：1991-02-11 00:00:00

abstract：:By using a synthetic DNA probe derived from an amino acid sequence in the most conserved region of three known photolyases (Escherichia coli, Anacystis nidulans and Saccharomyces cerevisiae), we isolated a DNA fragment containing two long open reading frames (ORFs) from a genomic DNA library of Streptomyces griseus. O...

journal_title：Nucleic acids research

authors： Kobayashi T,Takao M,Oikawa A,Yasui A

更新日期：1989-06-26 00:00:00

abstract：:Topoisomerases are ubiquitous proteins found in all three domains of life. They change the topology of DNA via transient breaks on either one or two of the DNA strands to allow passage of another single or double DNA strand through the break. Topoisomerases are classified into two types: type I enzymes cleave one DNA ...

journal_title：Nucleic acids research

authors： Baker NM,Rajan R,Mondragón A

更新日期：2009-02-01 00:00:00

abstract：:A theoretical approach for linkage mapping the genome of any higher eukaryote is described. It uses the polymerase chain reaction, oligonucleotides of random sequence and single haploid cells. Markers are defined and then the DNA of a single sperm is broken at random (eg by gamma-rays) and physically split into 3 aliq...

journal_title：Nucleic acids research

authors： Dear PH,Cook PR

更新日期：1989-09-12 00:00:00

abstract：:The current methods for quantifying genome-wide 5-methylcytosine (5mC) oxides are still scarce, mostly restricted with two limitations: assay sensitivity is seriously compromised with cost, assay time and sample input; epigenetic information is irreproducible during polymerase chain reaction (PCR) amplification withou...

journal_title：Nucleic acids research

authors： Chen D,Wang Y,Mo M,Zhang J,Zhang Y,Xu Y,Liu SY,Chen J,Ma Y,Zhang L,Dai Z,Cai C,Zou X

更新日期：2019-11-04 00:00:00

abstract：:THY Pol-2 intein, from Thermococcus hydrothermalis, belongs to the same allelic family as TLI Pol-2 (PI-TLII), Tfu Pol-2 (PI-TFUII) and TspTY Pol-3 mini-intein, all inserted at the pol-c site of archaeal DNA polymerase genes. This new intein was cloned, expressed in Escherichia coli and purified. The intein is a speci...

journal_title：Nucleic acids research

authors： Saves I,Eleaume H,Dietrich J,Masson JM

更新日期：2000-11-01 00:00:00

abstract：:To facilitate transcript mapping and to investigate alterations in genomic structure and gene expression in a defined genomic target, we developed a novel microarray-based method to detect transcriptional activity of the human chromosome 4q22-24 region. Loss of heterozygosity of human 4q22-24 is frequently observed in...

journal_title：Nucleic acids research

authors： Li LH,Li JC,Lin YF,Lin CY,Chen CY,Tsai SF

更新日期：2004-02-11 00:00:00

abstract：:The three chromosomal DNAs of S. pombe have been fractionated by pulsed field gel electrophoresis. The resulting molecular karyotype will greatly speed gene mapping in this organism, and it indicates that the separation range of the technique extends to DNA molecules as large as 9,000,000 base pairs. ...

journal_title：Nucleic acids research

authors： Smith CL,Matsumoto T,Niwa O,Klco S,Fan JB,Yanagida M,Cantor CR

更新日期：1987-06-11 00:00:00

abstract：:Many enzymes acting on DNA require Mg(2+) ions not only for catalysis but also to bind DNA. Binding studies often employ Ca(2+) as a substitute for Mg(2+), to promote DNA binding whilst disallowing catalysis. The SfiI endonuclease requires divalent metal ions to bind DNA but, in contrast to many systems where Ca(2+) m...

journal_title：Nucleic acids research

authors： Bellamy SR,Kovacheva YS,Zulkipli IH,Halford SE

更新日期：2009-09-01 00:00:00

abstract：:ymf39 is a conserved hypothetical protein-coding gene found in mitochondrial genomes of land plants and certain protists. We speculated earlier, based on a weak sequence similarity between Ymf39 from a green alga and the atpF gene product from Bradyrhizobium, that ymf39 might code for subunit b of mitochondrial F(0)F(...

journal_title：Nucleic acids research

authors： Burger G,Lang BF,Braun HP,Marx S

更新日期：2003-05-01 00:00:00

abstract：:Virtually the whole region of the mobile dispersed genetic element mdg1 including the direct repeats that frame mdg1 /1/ is transcribed. The end of the transcriptional unit is located within the direct repeat. Although the transcription of mdg1 is symmetric, one direction is transcribed preferentially and is a full-le...

journal_title：Nucleic acids research

authors： Ilyin Y,Chmeliauskaite VG,Kulguskin VV,Georgiev GP

更新日期：1980-11-25 00:00:00

abstract：:Strategies to regulate gene function frequently use small interfering RNAs (siRNAs) that can be made from their shRNA precursors via Dicer. However, when the duplex components of these siRNA effectors are expressed from their respective coding genes, the RNA interference (RNAi) activity is much reduced. Here, we explo...

journal_title：Nucleic acids research

authors： Jin X,Sun T,Zhao C,Zheng Y,Zhang Y,Cai W,He Q,Taira K,Zhang L,Zhou D

更新日期：2012-02-01 00:00:00

abstract：:EcoGene (http://ecogene.org) is a database and website devoted to continuously improving the structural and functional annotation of Escherichia coli K-12, one of the most well understood model organisms, represented by the MG1655(Seq) genome sequence and annotations. Major improvements to EcoGene in the past decade i...

journal_title：Nucleic acids research

authors： Zhou J,Rudd KE

更新日期：2013-01-01 00:00:00

abstract：:The synthesis of a pentadecamer of the 5'-phosphate of the antiviral nucleoside ribavirin (1'-beta-D-ribofuranosyl-1H-1,2,4-triazole-3-carboxamide) has been achieved. This homoribopolymer is terminated at the 5'-position with an (6-aminohexyl)phosphate group to permit conjugation to a carrier and at the 3'-position by...

journal_title：Nucleic acids research

authors： Dawson MI,Jina AN,Torkelson S,Rhee S,Moore M,Zarling DA,Hobbs PD

更新日期：1990-03-11 00:00:00

abstract：:The Escherichia coli RuvC protein is an endonuclease that resolves Holliday junctions. In vitro, the protein shows efficient structure-specific binding of Holliday junctions, yet the rate of junction resolution is remarkably low. We have mapped the sites of cleavage on a synthetic junction through which a crossover ca...

journal_title：Nucleic acids research

authors： Shah R,Bennett RJ,West SC

更新日期：1994-07-11 00:00:00

abstract：:The Functional Single Nucleotide Polymorphism (F-SNP) database integrates information obtained from 16 bioinformatics tools and databases about the functional effects of SNPs. These effects are predicted and indicated at the splicing, transcriptional, translational and post-translational level. As such, the database h...

journal_title：Nucleic acids research

authors： Lee PH,Shatkay H

更新日期：2008-01-01 00:00:00

abstract：:Key components of the translational apparatus, i.e. ribosomes, elongation factor EF-Tu and most aminoacyl-tRNA synthetases, are stereoselective and prevent incorporation of d-amino acids (d-aa) into polypeptides. The rare appearance of d-aa in natural polypeptides arises from post-translational modifications or non-ri...

journal_title：Nucleic acids research

authors： Achenbach J,Jahnz M,Bethge L,Paal K,Jung M,Schuster M,Albrecht R,Jarosch F,Nierhaus KH,Klussmann S

更新日期：2015-07-13 00:00:00

abstract：:A novel method of determining the number of superhelical turns of a covalently-closed plasmid DNA is described. It relies on the determination of the hyperchromicity, and hence the proportion of unstacked basepairs, of a partially heat-denatured sample which co-migrates during electrophoresis with nicked circular dupl...

journal_title：Nucleic acids research

authors： Dougherty G,Koller T

更新日期：1982-01-22 00:00:00

abstract：:Redefinition of UAG, UAA and UGA to specify a standard amino acid occurs in response to recoding signals present in a minority of mRNAs. This 'read-through' is in competition with termination and is utilized for gene expression. One of the recoding signals known to stimulate read-through is a hexanucleotide sequence o...

journal_title：Nucleic acids research

authors： Harrell L,Melcher U,Atkins JF

更新日期：2002-05-01 00:00:00

abstract：:Onconase, a cytotoxic ribonuclease from Rana pipiens, possesses pyroglutamate (Pyr) at the N-terminus and has a substrate preference for uridine-guanine (UG). To identify residues responsible for onconase's cytotoxicity, we cloned the rpr gene from genomic DNA and expressed it in Escherichia coli BL21(DE3). The recomb...

journal_title：Nucleic acids research

authors： Liao YD,Wang SC,Leu YJ,Wang CF,Chang ST,Hong YT,Pan YR,Chen C

更新日期：2003-09-15 00:00:00

abstract：:The first step in gene expression, transcription, is modulated by the interaction of transcription factors with their corresponding binding sites on the DNA sequence. Pscan is a software tool that scans a set of sequences (e.g. promoters) from co-regulated or co-expressed genes with motifs describing the binding speci...

journal_title：Nucleic acids research

authors： Zambelli F,Pesole G,Pavesi G

更新日期：2009-07-01 00:00:00

abstract：:We previously determined that a linear co-polymer of histidine and lysine (HK) in combination with liposomes enhanced the transfection efficiency of cationic liposomes. In the current study, we designed a series of HK polymers with increased branching and/or histidine/lysine ratio to determine if either variable affec...

journal_title：Nucleic acids research

authors： Chen QR,Zhang L,Stass SA,Mixson AJ

更新日期：2001-03-15 00:00:00

abstract：:Tcf/Lef family transcription factors are the downstream effectors of the Wingless/Wnt signal transduction pathway. Upon Wingless/Wnt signalling, beta-catenin translocates to the nucleus, interacts with Tcf (1-3) and thus activates transcription of target genes (4,5). Tcf factors also interact with members of the Grouc...

journal_title：Nucleic acids research

authors： Brantjes H,Roose J,van De Wetering M,Clevers H

更新日期：2001-04-01 00:00:00

abstract：:In mammalian cells, DNA damage induces robust changes in gene expression and these changes contribute to the proper execution of cellular responses to DNA damage, including DNA repair, cell cycle arrest and apoptosis. The transcription factor E2F-1 has been suggested to play a key role in the regulation of cell cycle-...

journal_title：Nucleic acids research

authors： Höfferer M,Wirbelauer C,Humar B,Krek W

更新日期：1999-01-15 00:00:00

abstract：:MicroRNAs (miRNAs) are small non-coding RNAs of approximately 22 nucleotides, which negatively regulate the gene expression at the post-transcriptional level. This study describes an update of the miRTarBase (http://miRTarBase.mbc.nctu.edu.tw/) that provides information about experimentally validated miRNA-target inte...

journal_title：Nucleic acids research

authors： Chou CH,Chang NW,Shrestha S,Hsu SD,Lin YL,Lee WH,Yang CD,Hong HC,Wei TY,Tu SJ,Tsai TR,Ho SY,Jian TY,Wu HY,Chen PR,Lin NC,Huang HT,Yang TL,Pai CY,Tai CS,Chen WL,Huang CY,Liu CC,Weng SL,Liao KW,Hsu WL,Hu

更新日期：2016-01-04 00:00:00

abstract：:The ability of Deinococcus radiodurans to recover from extensive DNA damage is due in part to its ability to efficiently repair its genome, even following severe fragmentation by hundreds of double-strand breaks. The single-strand annealing pathway plays an important role early during the recovery process, making use ...

journal_title：Nucleic acids research

authors： Sugiman-Marangos SN,Peel JK,Weiss YM,Ghirlando R,Junop MS

更新日期：2013-11-01 00:00:00

abstract：:We have used in vitro transcription in isolated pea nuclei to determine whether the expression of genes for the seed storage proteins legumin and vicilin is regulated transcriptionally or post-transcriptionally in response to changing sulfur status in the developing seed. During the first 48 h of recovery from S defic...

journal_title：Nucleic acids research

authors： Beach LR,Spencer D,Randall PJ,Higgins TJ

更新日期：1985-02-11 00:00:00

abstract：:A cDNA clone which expresses a protein that cross-reacts immunologically with the human C1 and C2 hnRNP core proteins has been isolated. The clone was selected by a sensitive immunochemical assay employing an avidin-biotin complex for detection, and identified as a clone for the hnRNP C proteins by a highly sensitive ...

journal_title：Nucleic acids research

authors： Lahiri DK,Thomas JO

更新日期：1986-05-27 00:00:00