ATPase activity of the UvrA and UvrAB protein complexes of the Escherichia coli UvrABC endonuclease.

abstract：:Escherichia coli seryl-tRNA synthetase (SerRS) is a homo-dimeric class II aminoacyl-tRNA synthetase. Each subunit is composed of two distinct domains: the N-terminal domain is a 60 A long, arm-like coiled coil structure built up of two antiparallel alpha-helices, whereas the C-terminal domain, the catalytic core, is a...

journal_title：Nucleic acids research

authors： Vincent C,Borel F,Willison JC,Leberman R,Härtlein M

更新日期：1995-04-11 00:00:00

abstract：:Two novel fluorescent cyanine-AMP conjugates, F550/570 and F650/670, have been synthesized to serve as transcription initiators under the T7 phi2.5 promoter. Efficient fluorophore labeling of 5' RNA is achieved in a single transcription step by including F550/570 and F650/670 in the transcription solution. The current...

journal_title：Nucleic acids research

authors： Li N,Yu C,Huang F

更新日期：2005-02-24 00:00:00

abstract：:The replication origin region of the Escherichia coli K-12 chromosome has been cloned, and a region of 245 base-pairs has been shown to contain all the information for autonomous replication (defined ori). In order to obtain further information on the sequence organization in the defined ori stretch, various types of ...

journal_title：Nucleic acids research

authors： Asada K,Sugimoto K,Oka A,Takanami M,Hirota Y

更新日期：1982-06-25 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：:Two residues are invariant in all bZip basic regions: asparagine -18 and arginine -10 (we define the first leucine of the leucine zipper of GCN4 as +1). X-ray structures of two specific GCN4-DNA complexes (Ellenberger et al., Cell, 71, 1223-1237, 1992; König & Richmond, J. Mol. Biol., 233, 139-154, 1993) demonstrate t...

journal_title：Nucleic acids research

authors： Suckow M,Schwamborn K,Kisters-Woike B,von Wilcken-Bergmann B,Müller-Hill B

更新日期：1994-10-25 00:00:00

abstract：:HSP90, found in all kingdoms of life, is a major chaperone protein regulating many client proteins. We demonstrated that HSP90α, one of two paralogs duplicated in vertebrates, plays an important role in the biogenesis of fetal PIWI-interacting RNAs (piRNA), which act against the transposon activities, in mouse male ge...

journal_title：Nucleic acids research

authors： Ichiyanagi T,Ichiyanagi K,Ogawa A,Kuramochi-Miyagawa S,Nakano T,Chuma S,Sasaki H,Udono H

更新日期：2014-10-29 00:00:00

abstract：:The stability of chromosome ends, the telomeres, is dependent on the ribonucleoprotein telomerase. In vitro, telomerase requires at least one RNA molecule and a reverse transcriptase-like protein. However, for telomere homeostasis in vivo, additional proteins are required. Telomerase RNAs of different species vary in ...

journal_title：Nucleic acids research

authors： Laterreur N,Eschbach SH,Lafontaine DA,Wellinger RJ

更新日期：2013-09-01 00:00:00

abstract：:RNA exhibits a large diversity of conformations. Three thousand nucleotides of 23S and 5S ribosomal RNA from a structure of the large ribosomal subunit were analyzed in order to classify their conformations. Fourier averaging of the six 3D distributions of torsion angles and analyses of the resulting pseudo electron m...

journal_title：Nucleic acids research

authors： Schneider B,Morávek Z,Berman HM

更新日期：2004-03-11 00:00:00

abstract：:5' Terminal cap structures of hnRNA have been characterized and the extent of capping determined as a function of embryonic development. Sea urchin embryo hnRNA contains only the type-1 cap, m7GpppNmpNp, with the type-2 cap, which has a 2'-0-methylated subpenultimate nucleotide, being associated only with stable small...

journal_title：Nucleic acids research

authors： Nemer M,Surrey S,Ginzburg I,Echols MM

更新日期：1979-01-01 00:00:00

abstract：:This laboratory has established in previous studies that Pmel 17, a gene expressed specifically in melanocytes, maps near the silver coat color locus (si/si) on mouse chromosome 10. In the current study, we have focused on determining whether or not the si allele carries a mutation in Pmel 17. Pmel 17 cDNA clones, iso...

journal_title：Nucleic acids research

authors： Kwon BS,Halaban R,Ponnazhagan S,Kim K,Chintamaneni C,Bennett D,Pickard RT

更新日期：1995-01-11 00:00:00

abstract：:Leishmania species are protozoan parasites whose remarkably plastic genome limits the establishment of effective genetic manipulation and leishmaniasis treatment. The strategies used by Leishmania to maintain its genome while allowing variability are not fully understood. Here, we used DiCre-mediated conditional gene ...

journal_title：Nucleic acids research

authors： Damasceno JD,Obonaga R,Silva GLA,Reis-Cunha JL,Duncan SM,Bartholomeu DC,Mottram JC,McCulloch R,Tosi LRO

更新日期：2018-12-14 00:00:00

abstract：:Here, we describe the development of WikiPathways (http://www.wikipathways.org), a public wiki for pathway curation, since it was first published in 2008. New features are discussed, as well as developments in the community of contributors. New features include a zoomable pathway viewer, support for pathway ontology a...

journal_title：Nucleic acids research

authors： Kelder T,van Iersel MP,Hanspers K,Kutmon M,Conklin BR,Evelo CT,Pico AR

更新日期：2012-01-01 00:00:00

abstract：:A soluble enzyme system that specifically initiates lambda dv plasmid DNA replication at a bacteriophage lambda replication origin [Wold et al. (1982) Proc. Natl. Acad. Sci. USA 79, 6176-6180] is also capable of replicating the single-stranded circular chromosomes of phages M13 and phi X174 to a duplex form. This chai...

journal_title：Nucleic acids research

authors： LeBowitz JH,McMacken R

更新日期：1984-04-11 00:00:00

abstract：:Rad18 is a ubiquitin E3 ligase that monoubiquitinates PCNA on stalled replications forks. This allows recruitment of damage-tolerant polymerases for damage bypass and DNA repair. In this activity, the Rad18 protein has to interact with Rad6, the E2 ubiquitin-conjugating enzyme, ubiquitin, PCNA and DNA. Here we analyze...

journal_title：Nucleic acids research

authors： Notenboom V,Hibbert RG,van Rossum-Fikkert SE,Olsen JV,Mann M,Sixma TK

更新日期：2007-01-01 00:00:00

abstract：:Post-transcriptional gene regulation is mediated through complex networks of protein-RNA interactions. The targets of only a few RNA binding proteins (RBPs) are known, even in the well-characterized budding yeast. In silico prediction of protein-RNA interactions is therefore useful to guide experiments and to provide ...

journal_title：Nucleic acids research

authors： Pancaldi V,Bähler J

更新日期：2011-08-01 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：:A hybrid plasmid was constructed containing beta-lactamase gene of plasmid pBR322 and cloned coding sequences of bovine growth hormone (BGH). The constructed plasmid contains all DNA sequences required to encode BGH, and when used as a hybridization probe it detects one growth hormone gene in the bovine genome. The cl...

journal_title：Nucleic acids research

authors： Keshet E,Rosner A,Bernstein Y,Gorecki M,Aviv H

更新日期：1981-01-10 00:00:00

abstract：:Single-stranded mRNA molecules form secondary structures through complementary self-interactions. Several hypotheses have been proposed on the relationship between the nucleotide sequence, encoded amino acid sequence and mRNA secondary structure. We performed the first transcriptome-wide in silico analysis of the huma...

journal_title：Nucleic acids research

authors： Shabalina SA,Ogurtsov AY,Spiridonov NA

更新日期：2006-05-08 00:00:00

abstract：:Conditional gene targeting depends on tissue and time specificity of recombination events. Endogenous promoters are often used to drive various transgenic constructs. To avoid the problems associated with reconstituting a specific expression pattern in transgenic animals by this method, we tested the internal ribosome...

journal_title：Nucleic acids research

authors： Lindeberg J,Ebendal T

更新日期：1999-03-15 00:00:00

abstract：:T4 polynucleotide kinase (Pnk) is a bifunctional 5'-kinase/3'-phosphatase that aids in the repair of broken termini in RNA by converting 3'-PO4/5'-OH ends into 3'-OH/5'-PO4 ends, which are then sealed by RNA ligase. Here we have employed site-directed mutagenesis (introducing 31 mutations at 16 positions) to locate ca...

journal_title：Nucleic acids research

authors： Wang LK,Shuman S

更新日期：2002-02-15 00:00:00

abstract：:The interactions of HIV-1 reverse transcriptase (HIV-1 RT) with a synthetic 53/19-mer DNA substrate was investigated. For this template-primer HIV-1 RT displayed a Km value of 20 nM. The 53/19-mer competitively inhibited DNA synthesis performed on poly (rC).oligo(dG) with Ki value of 260 nM. This corresponded well to ...

journal_title：Nucleic acids research

authors： Kruhøffer M,Urbanke C,Grosse F

更新日期：1993-08-25 00:00:00

abstract：:UV-irradiation (lambda = 254 nm) of liquid aqueous solutions of deoxyguanosine in the presence of oxygen at pH less than 7 causes an intensive degradation of nucleoside. The quantum yield estimated from A254 decrease for the reaction mixture was found to be 1.5X10(-4) at doses to 150 E/mole. The rate of A254 decrease ...

journal_title：Nucleic acids research

authors： Ivanchenko VA,Budowsky EI,Simukova NA,Vul'fson NS,Tishchenko AI,Askerov DB

更新日期：1977-04-01 00:00:00

abstract：:The essential and universal N(6)-threonylcarbamoyladenosine (t(6)A) modification at position 37 of ANN-decoding tRNAs plays a pivotal role in translational fidelity through enhancement of the cognate codon recognition and stabilization of the codon-anticodon interaction. In Escherichia coli, the YgjD (TsaD), YeaZ (Tsa...

journal_title：Nucleic acids research

authors： Zhang W,Collinet B,Perrochia L,Durand D,van Tilbeurgh H

更新日期：2015-02-18 00:00:00

abstract：:A C-->U mutation (rdn5) in the conserved sarcin/ricin domain of yeast 25S rRNA has been shown to cause translational suppression and paromomycin resistance. It also separates the killing from the misreading effect of this antibiotic. We confirm these findings and provide in vitro evidence that rdn5 causes a 3-fold inc...

journal_title：Nucleic acids research

authors： Panopoulos P,Dresios J,Synetos D

更新日期：2004-10-11 00:00:00

abstract：:One-Block CYRCA is an automated procedure for identifying multiple-block alignments from single block queries (http://bioinfo.weizmann.ac.il/blocks/OneCYRCA). It is based on the LAMA and CYRCA block-to-block alignment methods. The procedure identifies whether the query blocks can form new multiple-block alignments (bl...

journal_title：Nucleic acids research

authors： Frenkel-Morgenstern M,Singer A,Bronfeld H,Pietrokovski S

更新日期：2005-07-01 00:00:00

abstract：:Using peptide arrays and binding to native histone proteins, we show that the ADD domain of Dnmt3a specifically interacts with the H3 histone 1-19 tail. Binding is disrupted by di- and trimethylation of K4, phosphorylation of T3, S10 or T11 and acetylation of K4. We did not observe binding to the H4 1-19 tail. The ADD...

journal_title：Nucleic acids research

authors： Zhang Y,Jurkowska R,Soeroes S,Rajavelu A,Dhayalan A,Bock I,Rathert P,Brandt O,Reinhardt R,Fischle W,Jeltsch A

更新日期：2010-07-01 00:00:00

abstract：:We have partially purified replicating simian virus 40 (SV40) chromosomes in a form which allows continued DNA synthesis in vitro. We first prepare a soluble DNA-synthesizing system from SV40-infected monkey cells and then sediment the components through a neutral sucrose gradient of extremely low ionic strength. Repl...

journal_title：Nucleic acids research

authors： Edenberg HJ,Waqar MA,Huberman JA

更新日期：1977-09-01 00:00:00

abstract：:The numerous genomic sequences and ESTs released by the Arabidopsis thaliana Genome Initiative (AGI) have allowed a systematic and functional study of the DEAD box RNA helicase family. Sequencing and in silico analysis led to the characterization of 28 novel A. thaliana DEAD box RNA helicases forming a family of 32 me...

journal_title：Nucleic acids research

authors： Aubourg S,Kreis M,Lecharny A

更新日期：1999-01-15 00:00:00

abstract：:A DNA copy of influenza A/NT/60/68 viral RNA segment 2, corresponding to protein P1, has been cloned in the E.coli plasmid pBr322. The clone is 2341 nucleotides long and represents a full-length copy of the viral RNA. In the viral complementary (plus sense) strand there is an open reading frame that is 2271 nucleotide...

journal_title：Nucleic acids research

authors： Bishop DH,Huddleston JA,Brownlee GG

更新日期：1982-02-25 00:00:00

abstract：:RNA secondary structures, e.g. stem-loops that are often found at the 5' and 3' ends of mRNAs, are in many cases known to be crucial for transcript stability but their role in prolonging the lifetime of transcripts remains elusive. In this study we show for an essential RNA-stabilizing stem-loop at the 5' end of rbcL ...

journal_title：Nucleic acids research

authors： Suay L,Salvador ML,Abesha E,Klein U

更新日期：2005-08-22 00:00:00