5-Fluoro pyrimidines: labels to probe DNA and RNA secondary structures by 1D 19F NMR spectroscopy.

abstract：:Eukaryotic cellular mRNAs contain a cap at their 5'-ends, but some viral and cellular mRNAs bypass the cap-dependent mechanism of translation initiation in favor of internal entry of ribosomes at specific RNA sequences. Cap-dependent initiation requires intact initiation factor eIF4G (formerly eIF-4gamma, eIF-4Fgamma ...

journal_title：Nucleic acids research

authors： Keiper BD,Rhoads RE

更新日期：1997-01-15 00:00:00

abstract：:The nucleotide sequence of the promoter region and the first five genes of the atp (or unc) operon of Escherichia coli has been determined. The first proposed gene in the operon contains four AUA codons and may be poorly expressed; it encodes a basic but yet hydrophobic protein which could function as a pilot protein ...

journal_title：Nucleic acids research

authors： Gay NJ,Walker JE

更新日期：1981-08-25 00:00:00

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...

journal_title：Nucleic acids research

authors： Clark L,Hay RT

更新日期：1989-01-25 00:00:00

abstract：:GenBank(®) (http://www.ncbi.nlm.nih.gov/genbank/) is a comprehensive database that contains publicly available nucleotide sequences for over 300 000 formally described species. These sequences are obtained primarily through submissions from individual laboratories and batch submissions from large-scale sequencing proj...

journal_title：Nucleic acids research

authors： Benson DA,Clark K,Karsch-Mizrachi I,Lipman DJ,Ostell J,Sayers EW

更新日期：2015-01-01 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：:Sequences preceding the minimal promoter play a role in the differential expression of the Xenopus somatic and oocyte-type 5S RNA genes. In this report, the somatic sequences between -32 and +37 are shown to increase transcriptional activity in microinjected embryos, yet have little to no effect in microinjected oocyt...

journal_title：Nucleic acids research

authors： Reynolds WF

更新日期：1989-11-25 00:00:00

abstract：:With discovery of diverse roles for RNA, its centrality in cellular functions has become increasingly apparent. A number of algorithms have been developed to predict RNA secondary structure. Their performance has been benchmarked by comparing structure predictions to reference secondary structures. Generally, algorith...

journal_title：Nucleic acids research

authors： Xu Z,Almudevar A,Mathews DH

更新日期：2012-02-01 00:00:00

abstract：:The CRT10 gene was identified through screening of the Saccharomyces cerevisiae deletion library for hydroxyurea (HU) resistance. CRT10 encodes a putative 957 amino acid, 110 kDa protein with a leucine repeat and a WD40 repeat near the N-terminus. Deletion of CRT10 resulted in an enhanced resistance to HU reminiscent ...

journal_title：Nucleic acids research

authors： Fu Y,Xiao W

更新日期：2006-04-05 00:00:00

abstract：:Enzymes involved in nucleic acid transactions often have a helicase-like ATPase coordinating and driving their functional activities, but our understanding of the mechanistic details of their coordination is limited. For example, DNA cleavage by the antiphage defense system Type ISP restriction-modification enzyme req...

journal_title：Nucleic acids research

authors： Chand MK,Carle V,Anuvind KG,Saikrishnan K

更新日期：2020-03-18 00:00:00

abstract：:The European Bioinformatics Institute (EMBL-EBI) supports life-science research throughout the world by providing open data, open-source software and analytical tools, and technical infrastructure (https://www.ebi.ac.uk). We accommodate an increasingly diverse range of data types and integrate them, so that biologists...

journal_title：Nucleic acids research

authors： Cook CE,Bergman MT,Cochrane G,Apweiler R,Birney E

更新日期：2018-01-04 00:00:00

abstract：:The development of biosensors based on DNA hybridization requires a more precise knowledge of the thermodynamics of the hybridization at a solid interface. In particular, the selectivity of hybridization can be affected by a lot of parameters such as the single-strand (ss)DNA density, the pH, the ionic strength or the...

journal_title：Nucleic acids research

authors： Meunier-Prest R,Raveau S,Finot E,Legay G,Cherkaoui-Malki M,Latruffe N

更新日期：2003-12-01 00:00:00

abstract：:Protein-based methods of siRNA delivery are capable of uniquely specific targeting, but are limited by technical challenges such as low potency or poor biophysical properties. Here, we engineered a series of ultra-high affinity siRNA binders based on the viral protein p19 and developed them into siRNA carriers targete...

journal_title：Nucleic acids research

authors： Yang NJ,Kauke MJ,Sun F,Yang LF,Maass KF,Traxlmayr MW,Yu Y,Xu Y,Langer RS,Anderson DG,Wittrup KD

更新日期：2017-07-27 00:00:00

abstract：:The reported binding preference of human hnRNP protein A1 for the 3'-splice site of some introns (Swanson and Dreyfuss (1988) EMBO J. 7, 3519-3529; Mayrand and Pederson (1990) Nucleic Acids Res. 18, 3307-3318) was tested by assaying in vitro the binding of purified recombinant A1 protein (expressed in bacteria) to syn...

journal_title：Nucleic acids research

authors： Buvoli M,Cobianchi F,Biamonti G,Riva S

更新日期：1990-11-25 00:00:00

abstract：:Transcriptional repression of pathogen defense-related genes is essential for plant growth and development. Several proteins are known to be involved in the transcriptional regulation of plant defense responses. However, mechanisms by which expression of defense-related genes are regulated by repressor proteins are po...

journal_title：Nucleic acids research

authors： Kim HS,Park HC,Kim KE,Jung MS,Han HJ,Kim SH,Kwon YS,Bahk S,An J,Bae DW,Yun DJ,Kwak SS,Chung WS

更新日期：2012-10-01 00:00:00

abstract：:We have studied the effect of temperature on transcription initiation in vitro at two related promoters ga/Pcon and ga/P1, which have the same nucleotide sequence around the -10 region and transcription start site, but differ in upstream sequences. One of the promoters, ga/Pcon, carries the consensus -35 hexamer, 5'TT...

journal_title：Nucleic acids research

authors： Grimes E,Busby S,Minchin S

更新日期：1991-11-25 00:00:00

abstract：:Since 2010, the Genomicus web server is available online at http://genomicus.biologie.ens.fr/genomicus. This graphical browser provides access to comparative genomic analyses in four different phyla (Vertebrate, Plants, Fungi, and non vertebrate Metazoans). Users can analyse genomic information from extant species, as...

journal_title：Nucleic acids research

authors： Nguyen NTT,Vincens P,Roest Crollius H,Louis A

更新日期：2018-01-04 00:00:00

abstract：:Proteins perform biological functions through cascading interactions with each other by forming protein complexes. As a result, interactions among proteins, called protein-protein interactions (PPIs) are not completely free from selection constraint during evolution. Therefore, the identification and analysis of PPI c...

journal_title：Nucleic acids research

authors： Kwon D,Lee D,Kim J,Lee J,Sim M,Kim J

更新日期：2018-07-02 00:00:00

abstract：:The two genes encoding the class IIS restriction-modification system MboII from Moraxella bovis were cloned separately in two compatible plasmids and expressed in E. coli RR1 delta M15. The nucleotide sequences of the MboII endonuclease (R.MboII) and methylase (M.MboII) genes were determined and the putative start cod...

journal_title：Nucleic acids research

authors： Bocklage H,Heeger K,Müller-Hill B

更新日期：1991-03-11 00:00:00

abstract：:Benzo[c]phenanthrene dihydrodiol epoxide (B[c] PhDE) is well known as an important environmental chemical carcinogen that preferentially modifies DNA in adenine residues. However, the molecular mechanism by which B[c]PhDE induces tumorigenesis is not fully understood. In this report, we demonstrate that DNA mismatch r...

journal_title：Nucleic acids research

authors： Wu J,Zhu BB,Yu J,Zhu H,Qiu L,Kindy MS,Gu L,Seidel A,Li GM

更新日期：2003-11-15 00:00:00

abstract：:Double-strand breaks (DSBs) are dangerous chromosomal lesions that must be efficiently repaired in order to avoid loss of genetic information or cell death. In all organisms studied to date, two different mechanisms are used to repair DSBs: homologous recombination (HR) and non-homologous end joining (NHEJ). Previous ...

journal_title：Nucleic acids research

authors： Haviv-Chesner A,Kobayashi Y,Gabriel A,Kupiec M

更新日期：2007-01-01 00:00:00

abstract：:The NCBI Assembly database (www.ncbi.nlm.nih.gov/assembly/) provides stable accessioning and data tracking for genome assembly data. The model underlying the database can accommodate a range of assembly structures, including sets of unordered contig or scaffold sequences, bacterial genomes consisting of a single compl...

journal_title：Nucleic acids research

authors： Kitts PA,Church DM,Thibaud-Nissen F,Choi J,Hem V,Sapojnikov V,Smith RG,Tatusova T,Xiang C,Zherikov A,DiCuccio M,Murphy TD,Pruitt KD,Kimchi A

更新日期：2016-01-04 00:00:00

abstract：:Dlx homeobox genes are first expressed in embryonic retina at E11.5. The Dlx1/Dlx2 null retina has a reduced ganglion cell layer (GCL), with loss of late-born differentiated retinal ganglion cells (RGCs) due to increased apoptosis. TrkB signaling is proposed to regulate the dynamics of RGC apoptosis throughout develop...

journal_title：Nucleic acids research

authors： de Melo J,Zhou QP,Zhang Q,Zhang S,Fonseca M,Wigle JT,Eisenstat DD

更新日期：2008-02-01 00:00:00

abstract：:The rat alpha- and bovine alpha s1-casein genes have been isolated and their 5' sequences determined. The rat alpha-, beta-, gamma- and bovine alpha s1-casein genes contain similar 5' exon arrangements in which the 5' noncoding, signal peptide and casein kinase phosphorylation sequences are each encoded by separate ex...

journal_title：Nucleic acids research

authors： Yu-Lee LY,Richter-Mann L,Couch CH,Stewart AF,Mackinlay AG,Rosen JM

更新日期：1986-02-25 00:00:00

abstract：:Synthetic oligonucleotides were used to introduce mutations into the lacPUV5 promoter. Four mutations were obtained at positions -13, -14, and -15, with respect to the transcriptional start site. The effects of these mutations were measured in vivo and the results are discussed with respect to the consensus sequence a...

journal_title：Nucleic acids research

authors： Munson LM,Mandecki W,Caruthers MH,Reznikoff WS

更新日期：1984-05-11 00:00:00

abstract：:Protein-protein and protein-DNA/RNA interactions play a fundamental role in a variety of biological processes. Determining the complex structures of these interactions is valuable, in which molecular docking has played an important role. To automatically make use of the binding information from the PDB in docking, her...

journal_title：Nucleic acids research

authors： Yan Y,Zhang D,Zhou P,Li B,Huang SY

更新日期：2017-07-03 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

authors： Osipovich AB,White-Grindley EK,Hicks GG,Roshon MJ,Shaffer C,Moore JH,Ruley HE

更新日期：2004-05-20 00:00:00

abstract：:Approximately half of all human transcripts contain at least one upstream translational initiation site that precedes the main coding sequence (CDS) and gives rise to an upstream open reading frame (uORF). We generated uORFdb, publicly available at http://cbdm.mdc-berlin.de/tools/uorfdb, to serve as a comprehensive li...

journal_title：Nucleic acids research

authors： Wethmar K,Barbosa-Silva A,Andrade-Navarro MA,Leutz A

更新日期：2014-01-01 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：:Using circular dichroism spectroscopy, UV absorption spectroscopy and polyacrylamide gel electrophoresis, we studied conformational properties of guanine-rich DNA strands of the fragile X chromosome repeats d(GGC)n, d(GCG)n and d(CGG)n, with n = 2, 4, 8 and 16. These strands are generally considered in the literature ...

journal_title：Nucleic acids research

authors： Fojtík P,Kejnovská I,Vorlícková M

更新日期：2004-01-12 00:00:00

abstract：:The effect of [Na+] on the stability and conformation of penicillium chrysogenum mycophage dsRNA (PCMdsRNA) was investigated using CD and UV optical techniques. Thermal melting profiles reveal prominent fine structure attributed to at least four regions of structural dissimilarity. A constant increased thermal stabili...

journal_title：Nucleic acids research

authors： Burnett JP,Frank BH,Douthart RJ

更新日期：1975-06-01 00:00:00