Using iodinated single-stranded M13 probes to facilitate rapid DNA sequence analysis--nucleotide sequence of a mouse lysine tRNA gene.

abstract：:The model mRNA (MR), 11-mer RNA containing two nitroxide spin labels at the 5'- and 3'-terminal nucleotides and prone to form a stable homodimer (MR)2, was used for Electron Paramagnetic Resonance study of structural rearrangements in mRNA occurring upon its binding to human 80S ribosomes. The formation of two differe...

journal_title：Nucleic acids research

authors： Malygin AA,Graifer DM,Meschaninova MI,Venyaminova AG,Timofeev IO,Kuzhelev AA,Krumkacheva OA,Fedin MV,Karpova GG,Bagryanskaya EG

更新日期：2018-01-25 00:00:00

abstract：:Nucleoside 3'-phosphoramidite and chlorophosphite reagents have been found to react with the lactam function of guanine. This reaction caused unsatisfactory results when oligodeoxyribonucleotides containing a large number of guanine bases were prepared in an automated solid phase synthesizer. The guanine modification ...

journal_title：Nucleic acids research

authors： Pon RT,Damha MJ,Ogilvie KK

更新日期：1985-09-25 00:00:00

abstract：:Soil salinity is a significant threat to sustainable agricultural production worldwide. Plants must adjust their developmental and physiological processes to cope with salt stress. Although the capacity for adaptation ultimately depends on the genome, the exceptional versatility in gene regulation provided by the spli...

journal_title：Nucleic acids research

authors： Gu J,Xia Z,Luo Y,Jiang X,Qian B,Xie H,Zhu JK,Xiong L,Zhu J,Wang ZY

更新日期：2018-02-28 00:00:00

abstract：:VIDA is a new virus database that organizes open reading frames (ORFs) from partial and complete genomic sequences from animal viruses. Currently VIDA includes all sequences from GenBank for Herpesviridae, Coronaviridae and Arteriviridae. The ORFs are organized into homologous protein families, which are identified on...

journal_title：Nucleic acids research

authors： Albà MM,Lee D,Pearl FM,Shepherd AJ,Martin N,Orengo CA,Kellam P

更新日期：2001-01-01 00:00:00

abstract：:The development of genetic switches and their integrated forms (genetic circuits) with desired specifications/functions is key for success in synthetic biology. Due to the difficulty in rational design, genetic switches and circuits with desirable specifications are mostly obtained by directed evolution. Based on a vi...

journal_title：Nucleic acids research

authors： Tashiro Y,Fukutomi H,Terakubo K,Saito K,Umeno D

更新日期：2011-02-01 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：:The active and inactive state of transcription factors in growing cells is usually directed by allosteric physicochemical signals or metabolites, which are in turn either produced in the cell or obtained from the environment by the activity of the products of effector genes. To understand the regulatory dynamics and t...

journal_title：Nucleic acids research

authors： Janga SC,Salgado H,Martínez-Antonio A,Collado-Vides J

更新日期：2007-01-01 00:00:00

abstract：:FIMM database (http://sdmc.krdl.org.sg:8080/fimm) contains data relevant to functional molecular immunology, focusing on cellular immunology. It contains fully referenced data on protein antigens, major histocompatibility complex (MHC) molecules, MHC-associated peptides and relevant disease associations. FIMM has a se...

journal_title：Nucleic acids research

authors： Schönbach C,Koh JL,Flower DR,Wong L,Brusic V

更新日期：2002-01-01 00:00:00

abstract：:Muscle creatine kinase (MCK) is a major enzyme of cellular energy metabolism that is expressed upon differentiation of myoblasts into myotubes. Previously we cloned and sequenced the entire rabbit enzyme cDNA which was used as a probe in these studies to obtain a genomic clone from a rabbit library. The transcription ...

journal_title：Nucleic acids research

authors： Yi TM,Walsh K,Schimmel P

更新日期：1991-06-11 00:00:00

abstract：:Small interfering RNAs (siRNAs) are now established as the preferred tool to inhibit gene function in mammalian cells yet trigger unintended gene silencing due to their inherent miRNA-like behavior. Such off-target effects are primarily mediated by the sequence-specific interaction between the siRNA seed regions (posi...

journal_title：Nucleic acids research

authors： Bramsen JB,Pakula MM,Hansen TB,Bus C,Langkjær N,Odadzic D,Smicius R,Wengel SL,Chattopadhyaya J,Engels JW,Herdewijn P,Wengel J,Kjems J

更新日期：2010-09-01 00:00:00

abstract：:Numerous RNA-binding proteins have modular structures, comprising one or several copies of a selective RNA-binding domain generally coupled to an auxiliary domain that binds RNA non-specifically. We have built and compared homology-based models of the cold-shock domain (CSD) of the Xenopus protein, FRGY2, and of the t...

journal_title：Nucleic acids research

authors： Manival X,Ghisolfi-Nieto L,Joseph G,Bouvet P,Erard M

更新日期：2001-06-01 00:00:00

abstract：:The human Werner syndrome protein, WRN, is a member of the RecQ helicase family and contains 3'-->5' helicase and 3'-->5' exonuclease activities. Recently, we showed that the exonuclease activity of WRN is greatly stimulated by the human Ku heterodimer protein. We have now mapped this interaction physically and functi...

journal_title：Nucleic acids research

authors： Karmakar P,Snowden CM,Ramsden DA,Bohr VA

更新日期：2002-08-15 00:00:00

abstract：:Nucleotide excision repair is initiated by two different damage recognition subpathways, global genome repair (GGR) and transcription-coupled repair (TCR). In GGR, XPC detects DNA lesions and recruits TFIIH via interaction with the pleckstrin homology (PH) domain of TFIIH subunit p62. In TCR, an elongating form of RNA...

journal_title：Nucleic acids research

authors： Okuda M,Nakazawa Y,Guo C,Ogi T,Nishimura Y

更新日期：2017-12-15 00:00:00

abstract：:The three dimensional crystal structure of T5 5'-3' exonuclease was compared with that of two other members of the 5'-3' exonuclease family: T4 ribonuclease H and the N-terminal domain of Thermus aquaticus DNA polymerase I. Though these structures were largely similar, some regions of these enzymes show evidence of si...

journal_title：Nucleic acids research

authors： Artymiuk PJ,Ceska TA,Suck D,Sayers JR

更新日期：1997-11-01 00:00:00

abstract：:Bacteriophage T4 Dda helicase has recently been shown to be active as a monomer for unwinding of short duplex oligonucleotides and for displacing streptavidin from 3'-biotinylated oligonucleotides. However, its activity for streptavidin displacement and DNA unwinding has been shown to increase as the number of Dda mol...

journal_title：Nucleic acids research

authors： Byrd AK,Raney KD

更新日期：2006-05-31 00:00:00

abstract：:Holliday junction (HJ) resolving enzyme RecU is involved in DNA repair and recombination. We have determined the crystal structure of inactive mutant (D88N) of RecU from Bacillus subtilis in complex with a 12 base palindromic DNA fragment at a resolution of 3.2 Å. This structure shows the stalk region and the essentia...

journal_title：Nucleic acids research

authors： Khavnekar S,Dantu SC,Sedelnikova S,Ayora S,Rafferty J,Kale A

更新日期：2017-01-25 00:00:00

abstract：:Thymine DNA glycosylase (TDG) is a DNA repair enzyme that excises a variety of mismatched or damaged nucleotides (nts), e.g. dU, dT, 5fC and 5caC. TDG is shown to play essential roles in maintaining genome integrity and correctly programming epigenetic modifications through DNA demethylation. After locating the lesion...

journal_title：Nucleic acids research

authors： Da LT,Yu J

更新日期：2018-06-20 00:00:00

abstract：:HinP1I recognizes and cleaves the palindromic tetranucleotide sequence G downward arrowCGC in DNA. We report three structures of HinP1I-DNA complexes: in the presence of Ca(2+) (pre-reactive complex), in the absence of metal ion (binary complex) and in the presence of Mg(2+) (post-reactive complex). HinP1I forms a bac...

journal_title：Nucleic acids research

authors： Horton JR,Zhang X,Maunus R,Yang Z,Wilson GG,Roberts RJ,Cheng X

更新日期：2006-02-09 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：:Synthetic DNA fragments were constructed to determine the effect of G tracts, in conjunction with periodically spaced A tracts, on DNA bends. Relative length measurements showed that the G tracts spaced at the half helical turn enhanced the DNA bend. When the G tract was interrupted with a thymine or shortened to one ...

journal_title：Nucleic acids research

authors： Milton DL,Casper ML,Wills NM,Gesteland RF

更新日期：1990-02-25 00:00:00

abstract：:Spectroscopic studies of the complexes of double-stranded (ds) DNA with the polymethylene-amine linked heterodimers thiazole orange-thiazole blue, thiazole orange-ethidium, and fluorescein-ethidium, in each case show efficient energy transfer from donor to acceptor chromophores (Benson, S.C., Singh, P. and Glazer, A.N...

journal_title：Nucleic acids research

authors： Benson SC,Mathies RA,Glazer AN

更新日期：1993-12-11 00:00:00

abstract：:The polymerase encoded by human hepatitis B virus, which has reverse transcriptase and RNase H activity, binds to its pregenomic RNA template in a two-step process involving a terminal redundancy. Both first strand and second strand DNA synthesis involve primer translocation and second strand synthesis involves a temp...

journal_title：Nucleic acids research

authors： Kidd AH,Kidd-Ljunggren K

更新日期：1996-09-01 00:00:00

abstract：:Homing endonuclease genes (HEGs) are mobile DNA elements that are thought to confer no benefit to their host. They encode site-specific DNA endonucleases that perpetuate the element within a species population by homing and disseminate it between species by horizontal transfer. Several yeast species contain the VMA1 H...

journal_title：Nucleic acids research

authors： Posey KL,Koufopanou V,Burt A,Gimble FS

更新日期：2004-07-27 00:00:00

abstract：:Human prostatic acid phosphatase (PAcP) is a prostate epithelium-specific differentiation antigen. Cellular PAcP functions as a neutral protein tyrosine phosphatase and is involved in regulating androgen-promoted prostate cancer cell proliferation. Despite the fact that the promoter of the PAcP gene has been cloned, t...

journal_title：Nucleic acids research

authors： Zelivianski S,Glowacki R,Lin MF

更新日期：2004-07-07 00:00:00

abstract：:Gene trap mutagenesis of mouse embryonic stem cells generates random loss-of-function mutations, which can be identified by a sequence tag and can often report the endogenous expression of the mutated gene. The Centre for Modeling Human Disease is performing expression- and sequence-based screens of gene trap insertio...

journal_title：Nucleic acids research

authors： To C,Epp T,Reid T,Lan Q,Yu M,Li CY,Ohishi M,Hant P,Tsao N,Casallo G,Rossant J,Osborne LR,Stanford WL

更新日期：2004-01-01 00:00:00

abstract：:The Cre-lox system is an important tool for genetic manipulation. To promote integrative reactions, two strategies using mutant lox sites have been developed. One is the left element/right element (LE/RE)-mutant strategy and the other is the cassette exchange strategy using heterospecific lox sites such as lox511 or l...

journal_title：Nucleic acids research

authors： Araki K,Araki M,Yamamura K

更新日期：2002-10-01 00:00:00

abstract：:PCAF and hGCN5 are distinct human genes that encode proteins related to the yeast histone acetyltransferase and transcriptional adapter GCN5. The PCAF protein shares extensive similarity with the 439 amino acids of yGCN5, but it has an approximately 350 amino acid N-terminal extension that interacts with the transcrip...

journal_title：Nucleic acids research

authors： Smith ER,Belote JM,Schiltz RL,Yang XJ,Moore PA,Berger SL,Nakatani Y,Allis CD

更新日期：1998-06-15 00:00:00

abstract：:The particular behaviour of eukaryotic RNA polymerases along different gene regions and amongst distinct gene functional groups is not totally understood. To cast light onto the alternative active or backtracking states of RNA polymerase II, we have quantitatively mapped active RNA polymerases at a high resolution fol...

journal_title：Nucleic acids research

authors： Jordán-Pla A,Gupta I,de Miguel-Jiménez L,Steinmetz LM,Chávez S,Pelechano V,Pérez-Ortín JE

更新日期：2015-01-01 00:00:00

abstract：:Natural transformation is a major mechanism of horizontal gene transfer in bacteria that depends on DNA recombination. RecA is central to the homologous recombination pathway, catalyzing DNA strand invasion and homology search. DprA was shown to be a key binding partner of RecA acting as a specific mediator for its lo...

journal_title：Nucleic acids research

authors： Lisboa J,Andreani J,Sanchez D,Boudes M,Collinet B,Liger D,van Tilbeurgh H,Guérois R,Quevillon-Cheruel S

更新日期：2014-06-01 00:00:00

abstract：:We have examined the formation of alternate strand triple-helices at the target sequence A11(TC)6.(GA)6T11 using the oligonucleotides T11(AG)6 and T11(TG)6, by DNase I footprinting. These third strands were designed so as to form parallel T.AT triplets together with antiparallel G.GC and A.AT or T.AT triplets. We find...

journal_title：Nucleic acids research

authors： Washbrook E,Fox KR

更新日期：1994-09-25 00:00:00