Evolutionarily conserved proteins MnmE and GidA catalyze the formation of two methyluridine derivatives at tRNA wobble positions.

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：:T-region transfer from wild-type Agrobacterium strains is thought to be an orientated process, starting at the right border repeat and terminating at the left border repeat of the T-region. Here we demonstrate that a right border repeat in the inverted orientation relative to the onc-genes can also mediate transfer of...

journal_title：Nucleic acids research

authors： van Haaren MJ,Sedee NJ,de Boer HA,Schilperoort RA,Hooykaas PJ

更新日期：1988-11-11 00:00:00

abstract：:Proteomic and RNomic approaches have identified many components of different ribonucleoprotein particles (RNPs), yet still little is known about the organization and protein proximities within these heterogeneous and highly dynamic complexes. Here we describe a targeted cross-linking approach, which combines cross-lin...

journal_title：Nucleic acids research

authors： Trahan C,Oeffinger M

更新日期：2016-02-18 00:00:00

abstract：:The sequence of the 1173 nt 12S kinetoplast ribosomal RNA from Leishmania tarentolae was determined from the maxicircle DNA sequence, and the 5' and 3' ends localized by primer runoff and S1 nuclease protection experiments. The gene was shown to be free of introns by S1 nuclease analysis. A partial secondary structure...

journal_title：Nucleic acids research

authors： de la Cruz VF,Simpson AM,Lake JA,Simpson L

更新日期：1985-04-11 00:00:00

abstract：:7,8-Dihydro-8-oxo-deoxyguanosine (8oxodG) is a highly premutagenic DNA lesion due to its ability to mispair with adenine. Schizosaccharomyces pombe lacks homologs for relevant enzymes that repair 8oxodG, which suggests that this lesion could be persistent and must be tolerated. Here we show that SpPol4, the unique Pol...

journal_title：Nucleic acids research

authors： Sastre-Moreno G,Sánchez A,Esteban V,Blanco L

更新日期：2014-09-01 00:00:00

abstract：:Bacterial small RNAs (sRNAs) are a heterogeneous group of post-transcriptional regulators that often act at the heart of large networks. Hundreds of sRNAs have been discovered by genome-wide screens and most of these sRNAs exert their functions by base-pairing with target mRNAs. However, studies addressing the molecul...

journal_title：Nucleic acids research

authors： Fröhlich KS,Förstner KU,Gitai Z

更新日期：2018-11-16 00:00:00

abstract：:The behaviour of highly purified bacterial expressed rat O6-methylguanine-DNA methyltransferase (MGMT) towards the repair of CGCm6GAGCTCGCG and CGCe6GAGCTCGCG (km6G/ke6G = 1.45, where k is the second order repair rate constant determined, m6G and e6G are O6-methyl and O6-ethylguanine) is similar to that of E. coli 39k...

journal_title：Nucleic acids research

authors： Liem LK,Lim A,Li BF

更新日期：1994-05-11 00:00:00

abstract：:The DEAH-box NTPase Prp43 disassembles spliceosomes in co-operation with the cofactors Ntr1/Spp382 and Ntr2, forming the NTR complex. How Prp43 is regulated by its cofactors to discard selectively only intron-lariat spliceosomes (ILS) and defective spliceosomes and to prevent disassembly of earlier and properly assemb...

journal_title：Nucleic acids research

authors： Fourmann JB,Tauchert MJ,Ficner R,Fabrizio P,Lührmann R

更新日期：2017-04-20 00:00:00

abstract：:Correlation of motif occurrences with gene expression intensity is an effective strategy for elucidating transcriptional cis-regulatory logic. Here we demonstrate that this approach can also identify cis-regulatory elements for alternative pre-mRNA splicing. Using data from a human exon microarray, we identified 56 ca...

journal_title：Nucleic acids research

authors： Das D,Clark TA,Schweitzer A,Yamamoto M,Marr H,Arribere J,Minovitsky S,Poliakov A,Dubchak I,Blume JE,Conboy JG

更新日期：2007-01-01 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：:Influenza A virus (IAV) genomes are composed of eight single-stranded RNA segments that are coated by viral nucleoprotein (NP) molecules. Classically, the interaction between NP and viral RNA (vRNA) is depicted as a uniform pattern of 'beads on a string'. Using high-throughput sequencing of RNA isolated by crosslinkin...

journal_title：Nucleic acids research

authors： Lee N,Le Sage V,Nanni AV,Snyder DJ,Cooper VS,Lakdawala SS

更新日期：2017-09-06 00:00:00

abstract：:We report the use of an engineered ribozyme to produce a circular human exon in vitro. Specifically, we have designed a derivative of a yeast self-splicing group II intron that is able to catalyze the formation of a circular exon encoding the first kringle domain (K1) of the human tissue plasminogen activator protein....

journal_title：Nucleic acids research

authors： Mikheeva S,Hakim-Zargar M,Carlson D,Jarrell K

更新日期：1997-12-15 00:00:00

abstract：:Evidence will be presented to show that the allyl group is suitable for the protection of a 3'-terminal phosphodiester function. The latter will be demonstrated by the synthesis, via a phosphotriester approach, of two cyclic tetraribonucleotides [r(AAAA) and r(UAMe2UAMe2)], two cyclic hexadeoxyribonucleotides [d(CGCGC...

journal_title：Nucleic acids research

authors： de Vroom E,Broxterman HJ,Sliedregt LA,van der Marel GA,van Boom JH

更新日期：1988-05-25 00:00:00

abstract：:Three clones containing both the human G gamma and A gamma globlin genes have been isolated and characterized from a library of DNA fragments generated by partial Eco RI digestion of cellular DNA using charon 4A phage as vector. Two of the clones (NY 2 and 3) are identical and have an insert of 14.0 kb. The third clon...

journal_title：Nucleic acids research

authors： Ramirez F,Burns AL,Mears JG,Spence S,Starkman D,Bank A

更新日期：1979-11-10 00:00:00

abstract：:The nature and pace of genome mutation is largely unknown. Because standard methods sequence DNA from populations of cells, the genetic composition of individual cells is lost, de novo mutations in cells are concealed within the bulk signal and per cell cycle mutation rates and mechanisms remain elusive. Although sing...

journal_title：Nucleic acids research

authors： Voet T,Kumar P,Van Loo P,Cooke SL,Marshall J,Lin ML,Zamani Esteki M,Van der Aa N,Mateiu L,McBride DJ,Bignell GR,McLaren S,Teague J,Butler A,Raine K,Stebbings LA,Quail MA,D'Hooghe T,Moreau Y,Futreal PA,Stratton MR

更新日期：2013-07-01 00:00:00

abstract：:The lytic-lysogenic decision in bacteriophage 186 is governed by the 186 CI repressor protein in a unique way. The 186 CI is proposed to form a wheel-like oligomer that can mediate either wrapped or looped nucleoprotein complexes to provide the cooperative and competitive interactions needed for regulation. Although c...

journal_title：Nucleic acids research

authors： Wang H,Dodd IB,Dunlap DD,Shearwin KE,Finzi L

更新日期：2013-06-01 00:00:00

abstract：:In most cells, transcriptionally inactive heterochromatin is preferentially localized in the nuclear periphery and transcriptionally active euchromatin is localized in the nuclear interior. Different cell types display characteristic chromatin distribution patterns, which change dramatically during cell differentiatio...

journal_title：Nucleic acids research

authors： Bergqvist C,Niss F,Figueroa RA,Beckman M,Maksel D,Jafferali MH,Kulyté A,Ström AL,Hallberg E

更新日期：2019-05-21 00:00:00

abstract：:Alignment-based programs are valuable tools for finding potential homologs in genome sequences. Previously, it has been shown that partition function posterior probabilities attuned to local alignment achieve a high accuracy in identifying distantly similar non-coding RNA sequences that are hidden in a large genome. H...

journal_title：Nucleic acids research

authors： Chikkagoudar S,Livesay DR,Roshan U

更新日期：2010-07-01 00:00:00

abstract：:Histone post-translational modifications have been shown to contribute to DNA damage repair. Prior studies have suggested that specific H3K79 methylation states play distinct roles in the response to UV-induced DNA damage. To evaluate these observations, we examined the effect of altered H3K79 methylation patterns on ...

journal_title：Nucleic acids research

authors： Rossodivita AA,Boudoures AL,Mecoli JP,Steenkiste EM,Karl AL,Vines EM,Cole AM,Ansbro MR,Thompson JS

更新日期：2014-06-01 00:00:00

abstract：:We present evidence of formation of an intramolecular parallel triple helix with T*A.T and G*G.C base triplets (where * represents the hydrogen bonding interaction between the third strand and the duplex while. represents the Watson-Crick interactions which stabilize the duplex). The third GT strand, containing seven ...

journal_title：Nucleic acids research

authors： Khomyakova EB,Gousset H,Liquier J,Huynh-Dinh T,Gouyette C,Takahashi M,Florentiev VL,Taillandier E

更新日期：2000-09-15 00:00:00

abstract：:M13 RF IV DNA may be prepared in vitro to contain phosphorothioate-modified internucleotidic linkages in the (-)strand only. Certain restriction enzymes react with this modified DNA to hydrolyze the (+)strand exclusively when a phosphorothioate linkage occurs at the normal cleavage point in the (-)strand. The reaction...

journal_title：Nucleic acids research

authors： Taylor JW,Ott J,Eckstein F

更新日期：1985-12-20 00:00:00

abstract：:The newest genomic advances have uncovered an unprecedented degree of structural variation throughout genomes, with great amounts of data accumulating rapidly. Here we introduce InvFEST (http://invfestdb.uab.cat), a database combining multiple sources of information to generate a complete catalogue of non-redundant hu...

journal_title：Nucleic acids research

authors： Martínez-Fundichely A,Casillas S,Egea R,Ràmia M,Barbadilla A,Pantano L,Puig M,Cáceres M

更新日期：2014-01-01 00:00:00

abstract：:The promoter region of the mouse CCAAT-Enhancer Binding Protein (C/EBP alpha) gene is capable of directing high levels of expression of reporter constructs in various cell lines, albeit even in cells that do not express their endogenous C/EBP alpha gene. To understand the molecular mechanisms underlying this ubiquitou...

journal_title：Nucleic acids research

authors： Legraverend C,Antonson P,Flodby P,Xanthopoulos KG

更新日期：1993-04-25 00:00:00

abstract：:To efficiently utilize the growing body of available protein localization data, we have developed Organelle DB, a web-accessible database cataloging more than 25,000 proteins from nearly 60 organelles, subcellular structures and protein complexes in 154 organisms spanning the eukaryotic kingdom. Organelle DB is the fi...

journal_title：Nucleic acids research

authors： Wiwatwattana N,Kumar A

更新日期：2005-01-01 00:00:00

abstract：:The Intronerator (http://www.cse.ucsc.edu/ approximately kent/intronerator/ ) is a set of web-based tools for exploring RNA splicing and gene structure in Caenorhabditis elegans. It includes a display of cDNA alignments with the genomic sequence, a catalog of alternatively spliced genes and a database of introns. The ...

journal_title：Nucleic acids research

authors： Kent WJ,Zahler AM

更新日期：2000-01-01 00:00:00

abstract：:Post-translational modifications (PTMs) regulate many aspects of protein function and are indispensable for the spatio-temporal regulation of cellular processes. The proteome-wide identification of PTM targets has made significant progress in recent years, as has the characterization of their writers, readers, modifie...

journal_title：Nucleic acids research

authors： Teloni F,Altmeyer M

更新日期：2016-02-18 00:00:00

abstract：:The main goal of this review is to provide some guide-lines for choosing a proper method when searching for differentially expressed transcripts. The choice of an approach should depend upon particular features of the experiment and project requirements. We outline some general considerations to help decide between di...

journal_title：Nucleic acids research

authors： Matz MV,Lukyanov SA

更新日期：1998-12-15 00:00:00

abstract：:Termination of DNA replication in Bacillus subtilis involves the polar arrest of replication forks by a specific complex formed between the replication terminator protein (RTP) and DNA terminator sites. While determination of the crystal structure of RTP has facilitated our understanding of how a single RTP dimer inte...

journal_title：Nucleic acids research

authors： Kralicek AV,Wilson PK,Ralston GB,Wake RG,King GF

更新日期：1997-02-01 00:00:00

abstract：:DNA target recognizing domains of different multispecific DNA-cytosine-methyltransferases can be rearranged through engineering of the corresponding genes to generate enzymes with novel combinations of target recognition. ...

journal_title：Nucleic acids research

authors： Trautner TA,Balganesh TS,Pawlek B

更新日期：1988-07-25 00:00:00

abstract：:We have determined the nucleotide sequence of a 7.5 kb full-size gypsy element from Drosophila subobscura strain H-271. Comparative analyses were carried out on the sequence and molecular structure of gypsy elements of D.subobscura (gypsyDs), D.melanogaster (gypsyDm) and D.virilis (gypsyDv). The three elements show a ...

journal_title：Nucleic acids research

authors： Alberola TM,de Frutos R

更新日期：1996-03-01 00:00:00