Iodination of nucleosomes at low ionic strength: conformational changes in H4 and stabilization by H1.

abstract：:Multiple physiopathological and clinical conditions trigger skeletal muscle atrophy through the induction of a group of proteins (atrogenes) that includes components of the ubiquitin-proteasome and autophagy-lysosomal systems. Atrogenes are induced by FOXO transcription factors, but their regulation is still not fully...

journal_title：Nucleic acids research

authors： Ninfali C,Siles L,Darling DS,Postigo A

更新日期：2018-11-16 00:00:00

abstract：:RNArchitecture is a database that provides a comprehensive description of relationships between known families of structured non-coding RNAs, with a focus on structural similarities. The classification is hierarchical and similar to the system used in the SCOP and CATH databases of protein structures. Its central leve...

journal_title：Nucleic acids research

authors： Boccaletto P,Magnus M,Almeida C,Zyla A,Astha A,Pluta R,Baginski B,Jankowska E,Dunin-Horkawicz S,Wirecki TK,Boniecki MJ,Stefaniak F,Bujnicki JM

更新日期：2018-01-04 00:00:00

abstract：:The modulation of GLI2, an oncogenic transcription factor commonly upregulated in cancer, is in many cases not due to genetic defects, suggesting dysregulation through alternative mechanisms. The identity of these molecular events remains for the most part unknown. Here, we identified TFII-I as a novel repressor of GL...

journal_title：Nucleic acids research

authors： McCleary-Wheeler AL,Paradise BD,Almada LL,Carlson AJ,Marks DL,Vrabel A,Vera RE,Sigafoos AN,Olson RL,Fernandez-Zapico ME

更新日期：2020-07-27 00:00:00

abstract：:RNase J is a conserved ribonuclease that belongs to the β-CASP family of nucleases. It possesses both endo- and exo-ribonuclease activities, which play a key role in pre-rRNA maturation and mRNA decay. Here we report high-resolution crystal structures of Deinococcus radiodurans RNase J complexed with RNA or uridine 5'...

journal_title：Nucleic acids research

authors： Zhao Y,Lu M,Zhang H,Hu J,Zhou C,Xu Q,Ul Hussain Shah AM,Xu H,Wang L,Hua Y

更新日期：2015-06-23 00:00:00

abstract：:Oligoribonucleotides with 2'-5' linkages have been synthesized on solid support. UV melting and CD experiments indicate complementary strands associate to give complexes with melting temperatures 30 to 40 degrees C lower than for duplexes formed by 3'-5' oligoribonucleotides with the same sequence. UV melting and imin...

journal_title：Nucleic acids research

authors： Kierzek R,He L,Turner DH

更新日期：1992-04-11 00:00:00

abstract：:Initiation of bacterial DNA replication at oriC is mediated by primosomal proteins that act cooperatively to melt an AT-rich region where the replicative helicase is loaded prior to the assembly of the replication fork. In Bacillus subtilis, the dnaD, dnaB and dnaI genes are essential for initiation of DNA replication...

journal_title：Nucleic acids research

authors： Grainger WH,Machón C,Scott DJ,Soultanas P

更新日期：2010-05-01 00:00:00

abstract：:The reaction of fluorescamine with primary amino groups of tRNAs was investigated. The reagent was attached under mild conditions to the 3'-end of tRNAPhe-C-C-A(3'NH) from yeast and to the minor nucleoside x in E. coli tRNAArg, tRNALys, tRNAMet, tRNAIle and tRNAPhe. The primary aliphatic amino groups of these tRNAs re...

journal_title：Nucleic acids research

authors： Sprinzl M,Faulhammer HG

更新日期：1978-12-01 00:00:00

abstract：:Riboswitches are important gene regulatory elements frequently encountered in bacterial mRNAs. The recently discovered nadA riboswitch contains two similar, tandemly arrayed aptamer domains, with the first domain possessing high affinity for nicotinamide adenine dinucleotide (NAD+). The second domain which comprises t...

journal_title：Nucleic acids research

authors： Chen H,Egger M,Xu X,Flemmich L,Krasheninina O,Sun A,Micura R,Ren A

更新日期：2020-12-02 00:00:00

abstract：:Transcriptomics (at the level of single cells, tissues and/or whole organisms) underpins many fields of biomedical science, from understanding the basic cellular function in model organisms, to the elucidation of the biological events that govern the development and progression of human diseases, and the exploration o...

journal_title：Nucleic acids research

authors： Cantacessi C,Jex AR,Hall RS,Young ND,Campbell BE,Joachim A,Nolan MJ,Abubucker S,Sternberg PW,Ranganathan S,Mitreva M,Gasser RB

更新日期：2010-09-01 00:00:00

abstract：:The antitumor antibiotic CC-1065 binds in the minor groove of double-stranded DNA, and the cyclopropapyrroloindole (CPI) subunit of the drug alkylates adjacent adenines at their N-3 position. We have attached racemic CPI to oligodeoxyribonucleotides (ODNs) via a terminal phosphorothioate at either the 3'- or 5'-end of...

journal_title：Nucleic acids research

authors： Lukhtanov EA,Podyminogin MA,Kutyavin IV,Meyer RB,Gamper HB

更新日期：1996-02-15 00:00:00

abstract：:Interactive Tree Of Life (http://itol.embl.de) is a web-based tool for the display, manipulation and annotation of phylogenetic trees. It is freely available and open to everyone. In addition to classical tree viewer functions, iTOL offers many novel ways of annotating trees with various additional data. Current versi...

journal_title：Nucleic acids research

authors： Letunic I,Bork P

更新日期：2011-07-01 00:00:00

abstract：:Human cells are, in general, poor recipients of foreign DNA, which has severely hampered the cloning of genes by direct phenotypic correction of deficient human cell lines after DNA mediated gene transfer. In this communication a methodology is presented which largely circumvents this problems. The method relies on th...

journal_title：Nucleic acids research

authors： Belt PB,Jongmans W,de Wit J,Hoeijmakers JH,van de Putte P,Backendorf C

更新日期：1991-09-25 00:00:00

abstract：:To prevent progressive telomere shortening as a result of conventional DNA replication, new telomeric DNA must be added onto the chromosome end. The de novo DNA synthesis involves elongation of the G-rich strand of the telomere by telomerase. In human cells, the CST complex (CTC1-STN1-TEN1) also functions in telomere ...

journal_title：Nucleic acids research

authors： Feng X,Hsu SJ,Kasbek C,Chaiken M,Price CM

更新日期：2017-05-05 00:00:00

abstract：:Late SV40 16S and 19S mRNAs were found to contain an average of three m6A residues per mRNA molecule. The methylated residues of both the viral and cellular mRNAs occur in two sequences; Gpm6ApC and (Ap)nm6ApC, where n = 1-4. More than 60% of the m6A residues in SV40 16S and 19S mRNAs occur in Gpm6ApC even though ther...

journal_title：Nucleic acids research

authors： Canaani D,Kahana C,Lavi S,Groner Y

更新日期：1979-06-25 00:00:00

abstract：:Active DNA demethylation is crucial for epigenetic control, but the underlying enzymatic mechanisms are incompletely understood. REPRESSOR OF SILENCING 1 (ROS1) is a 5-methylcytosine (5-meC) DNA glycosylase/lyase that initiates DNA demethylation in plants through a base excision repair process. The enzyme binds DNA no...

journal_title：Nucleic acids research

authors： Parrilla-Doblas JT,Ponferrada-Marín MI,Roldán-Arjona T,Ariza RR

更新日期：2013-10-01 00:00:00

abstract：:Understanding the molecular mechanisms that influence transposable element target site preferences is a fundamental challenge in functional and evolutionary genomics. Large-scale transposon insertion projects provide excellent material to study target site preferences in the absence of confounding effects of post-inse...

journal_title：Nucleic acids research

authors： Linheiro RS,Bergman CM

更新日期：2008-11-01 00:00:00

abstract：:The Comparative Toxicogenomics Database (CTD; http://ctdbase.org/) is a premier public resource for literature-based, manually curated associations between chemicals, gene products, phenotypes, diseases, and environmental exposures. In this biennial update, we present our new chemical-phenotype module that codes chemi...

journal_title：Nucleic acids research

authors： Davis AP,Grondin CJ,Johnson RJ,Sciaky D,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ

更新日期：2019-01-08 00:00:00

abstract：:The antitumour antibiotics bleomycin and actinomycin are commonly used therapeutically in combination. One causes metal ion- and oxygen-dependent oxidative damage to DNA, while the other acts at the level of DNA via intercalation of its phenoxazone chromophore and probable inhibition of topoisomerases. Both drugs bind...

journal_title：Nucleic acids research

authors： Bailly C,Kénani A,Waring MJ

更新日期：1997-04-15 00:00:00

abstract：:The IMGT/HLA database (http://www.ebi.ac.uk/imgt/hla) has provided a centralized repository for the sequences of the alleles named by the WHO Nomenclature Committee for Factors of the HLA System for the past four years. Since its initial release the database has grown and is the primary source of information for the s...

journal_title：Nucleic acids research

authors： Robinson J,Waller MJ,Parham P,de Groot N,Bontrop R,Kennedy LJ,Stoehr P,Marsh SG

更新日期：2003-01-01 00:00:00

abstract：:Only the deproteinized DNA preparations of the simian adenovirus of the type 7 (SA 7) exhibited transforming and tumorigenic activity. The complex of the SA7 DNA with terminal protein (TP) did not exhibit either transforming or tumorigenic activity in cell cultures. In contrast to the transforming potential the infect...

journal_title：Nucleic acids research

authors： Ponomareva TI,Grodnitskaya NA,Goldberg EE,Chaplygina NM,Naroditsky BS,Tikchonenko TI

更新日期：1979-07-11 00:00:00

abstract：:The pathogen-host interactions database (PHI-base) is available at www.phi-base.org PHI-base contains expertly curated molecular and biological information on genes proven to affect the outcome of pathogen-host interactions reported in peer reviewed research articles. In addition, literature that indicates specific ge...

journal_title：Nucleic acids research

authors： Urban M,Cuzick A,Rutherford K,Irvine A,Pedro H,Pant R,Sadanadan V,Khamari L,Billal S,Mohanty S,Hammond-Kosack KE

更新日期：2017-01-04 00:00:00

abstract：:Wild type p53 assembles into a latent multiprotein complex which can be activated for sequence-specific DNA binding in vitro by proteins targeting the carboxy-terminal domain. Using an optimized system coupling the post-translational modification of wild type p53 to activation of sequence specific DNA binding, we exam...

journal_title：Nucleic acids research

authors： Hupp TR,Meek DW,Midgley CA,Lane DP

更新日期：1993-07-11 00:00:00

abstract：:Next-generation DNA sequencing platforms provide exciting new possibilities for in vitro genetic analysis of functional nucleic acids. However, the size of the resulting data sets presents computational and analytical challenges. We present an open-source software package that employs a locality-sensitive hashing algo...

journal_title：Nucleic acids research

authors： Pitt JN,Rajapakse I,Ferré-D'Amaré AR

更新日期：2010-12-01 00:00:00

abstract：:Synthesis of HIV GagPol involves a proportion of ribosomes translating a U6A shift site at the distal end of the gag gene performing a programmed -1 ribosomal frameshift event to enter the overlapping pol gene. In vitro studies here show that at the same shift motif HIV reverse transcriptase generates -1 and +1 indels...

journal_title：Nucleic acids research

authors： Penno C,Kumari R,Baranov PV,van Sinderen D,Atkins JF

更新日期：2017-09-29 00:00:00

abstract：:The isolation and characterization of deletion mutants of the bacteriocinogenic plasmid Clo DF13 is described. To construct these deletion mutants, DNA of Clo DF13::Tn901 and Clo DF13-rep3::Tn901 plasmids was digested with restriction endonucleases, ligated with T4 ligase and introduced by transformation into Escheric...

journal_title：Nucleic acids research

authors： Stuitje AR,Veltkamp E,van den Elzen PJ,Nijkamp HJ

更新日期：1978-06-01 00:00:00

abstract：:The VISTA portal for comparative genomics is designed to give biomedical scientists a unified set of tools to lead them from the raw DNA sequences through the alignment and annotation to the visualization of the results. The VISTA portal also hosts the alignments of a number of genomes computed by our group, allowing ...

journal_title：Nucleic acids research

authors： Brudno M,Poliakov A,Minovitsky S,Ratnere I,Dubchak I

更新日期：2007-07-01 00:00:00

abstract：:BRENDA is a comprehensive relational database on functional and molecular information of enzymes, based on primary literature. The database contains information extracted and evaluated from approximately 46 000 references, holding data of at least 40 000 different enzymes from more than 6900 different organisms, class...

journal_title：Nucleic acids research

authors： Schomburg I,Chang A,Schomburg D

更新日期：2002-01-01 00:00:00

abstract：:To unravel the network of transcription factors established during development it is important to understand how genes specifically expressed during embryogenesis are regulated. Oct-4 is a transcription factor whose expression is associated with an undifferentiated cell phenotype in the early mouse embryo and is downr...

journal_title：Nucleic acids research

authors： Sylvester I,Schöler HR

更新日期：1994-03-25 00:00:00

abstract：:Human apolipoprotein (apo) B mRNA is edited in a tissue specific reaction, to convert glutamine codon 2153 (CAA) to a stop translation codon. The RNA editing product templates and hybridises as uridine, but the chemical nature of this reaction and the physical identity of the product are unknown. After editing in vitr...

journal_title：Nucleic acids research

authors： Hodges PE,Navaratnam N,Greeve JC,Scott J

更新日期：1991-03-25 00:00:00

abstract：:The role of the enzyme poly(adenosine diphosphate-ribose) polymerase (PADPRP) in DNA repair at the level of the gene was investigated with human HeLa cells in which PADPRP antisense transcripts are inducible with dexamethasone. After such induction, the cellular content of PADPRP is reduced by 90%. DNA damage and its ...

journal_title：Nucleic acids research

authors： Stevnsner T,Ding R,Smulson M,Bohr VA

更新日期：1994-11-11 00:00:00