The miniF plasmid C protein: sequence, purification and DNA binding.


:The C (pifC) protein of miniF represses transcription of its own gene by binding to the pif operator (pifO); it is also needed for replication initiated from the miniF primary origin (ori-1). We have determined the nucleotide sequence of the C gene. The gene has been inserted into an expression vector under Ptrp control where it is expressed at high levels. The C protein has been purified from cells carrying the Ptrp-C plasmid, and a preliminary study of C protein-DNA binding properties has been carried out. C protein binds strongly to pifO, and weakly to sequences in the ori-1 region.


Nucleic Acids Res


Nucleic acids research


Caughey PA,de Feyter R,Lane HE




Has Abstract


1986-12-22 00:00:00












  • Single-molecule kinetics reveal microscopic mechanism by which High-Mobility Group B proteins alter DNA flexibility.

    abstract::Eukaryotic High-Mobility Group B (HMGB) proteins alter DNA elasticity while facilitating transcription, replication and DNA repair. We developed a new single-molecule method to probe non-specific DNA interactions for two HMGB homologs: the human HMGB2 box A domain and yeast Nhp6Ap, along with chimeric mutants replacin...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: McCauley MJ,Rueter EM,Rouzina I,Maher LJ 3rd,Williams MC

    更新日期:2013-01-07 00:00:00

  • Autoregulation of MBNL1 function by exon 1 exclusion from MBNL1 transcript.

    abstract::Muscleblind-like proteins (MBNLs) are regulators of RNA metabolism. During tissue differentiation the level of MBNLs increases, while their functional insufficiency plays a crucial role in myotonic dystrophy (DM). Deep sequencing of RNA molecules cross-linked to immunoprecipitated protein particles (CLIP-seq) revealed...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Konieczny P,Stepniak-Konieczna E,Taylor K,Sznajder LJ,Sobczak K

    更新日期:2017-02-28 00:00:00

  • Proteotoxic stress promotes entrapment of ribosomes and misfolded proteins in a shared cytosolic compartment.

    abstract::Cells continuously monitor protein synthesis to prevent accumulation of aberrant polypeptides. Insufficient capacity of cellular degradative systems, chaperone shortage or high levels of mistranslation by ribosomes can result in proteotoxic stress and endanger proteostasis. One of the least explored reasons for mistra...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Ghosh A,Williams LD,Pestov DG,Shcherbik N

    更新日期:2020-04-17 00:00:00

  • De novo assembly of genuine replication forks on an immobilized circular plasmid in Xenopus egg extracts.

    abstract::We describe an improved model of DNA replication in Xenopus egg extracts, in which a circular plasmid immobilized on paramagnetic beads is used as a template. DNA synthesis occurred on either circular or linear plasmids coupled to the beads, but only DNA synthesis on the circular plasmid was inhibited by geminin and a...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Zembutsu A,Waga S

    更新日期:2006-07-26 00:00:00

  • Programmed genome rearrangements in Oxytricha produce transcriptionally active extrachromosomal circular DNA.

    abstract::Extrachromosomal circular DNA (eccDNA) is both a driver of eukaryotic genome instability and a product of programmed genome rearrangements, but its extent had not been surveyed in Oxytricha, a ciliate with elaborate DNA elimination and translocation during development. Here, we captured rearrangement-specific circular...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Yerlici VT,Lu MW,Hoge CR,Miller RV,Neme R,Khurana JS,Bracht JR,Landweber LF

    更新日期:2019-10-10 00:00:00

  • Epigenetics of a tandem DNA repeat: chromatin DNaseI sensitivity and opposite methylation changes in cancers.

    abstract::DNA methylation and chromatin DNaseI sensitivity were analyzed in and adjacent to D4Z4 repeat arrays, which consist of 1 to approximately 100 tandem 3.3-kb units at subtelomeric 4q and 10q. D4Z4 displayed hypomethylation in some cancers and hypermethylation in others relative to normal tissues. Surprisingly, in cancer...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Tsumagari K,Qi L,Jackson K,Shao C,Lacey M,Sowden J,Tawil R,Vedanarayanan V,Ehrlich M

    更新日期:2008-04-01 00:00:00

  • The Mediator subunit MED1/TRAP220 is required for optimal glucocorticoid receptor-mediated transcription activation.

    abstract::The MED1/TRAP220 subunit of the Mediator plays a key role in facilitating ligand-dependent interactions of this multisubunit coactivator complex with nuclear receptors through their ligand binding domains. The isolated MED1/TRAP220 protein previously was shown to interact with glucocorticoid receptor (GR) in a ligand-...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Chen W,Roeder RG

    更新日期:2007-01-01 00:00:00

  • Dynamics of filamentous viral RNPs prior to egress.

    abstract::The final step in the maturation of paramyxoviruses, orthomyxoviruses and viruses of several other families, entails the budding of the viral nucleocapsid through the plasma membrane of the host cell. Many medically important viruses, such as influenza, parainfluenza, respiratory syncytial virus (RSV) and Ebola, can f...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Santangelo PJ,Bao G

    更新日期:2007-01-01 00:00:00

  • Comparative analysis of non-autonomous effects of tasiRNAs and miRNAs in Arabidopsis thaliana.

    abstract::In plants, small interfering RNAs (siRNAs) can trigger a silencing signal that may spread within a tissue to adjacent cells or even systemically to other organs. Movement of the signal is initially limited to a few cells, but in some cases the signal can be amplified and travel over larger distances. How far silencing...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: de Felippes FF,Ott F,Weigel D

    更新日期:2011-04-01 00:00:00

  • TFII-I-mediated polymerase pausing antagonizes GLI2 induction by TGFβ.

    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

    pub_type: 杂志文章


    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

  • Myh7b/miR-499 gene expression is transcriptionally regulated by MRFs and Eos.

    abstract::The sarcomeric myosin gene, Myh7b, encodes an intronic microRNA, miR-499, which regulates cardiac and skeletal muscle biology, yet little is known about its transcriptional regulation. To identify the transcription factors involved in regulating Myh7b/miR-499 gene expression, we have mapped the transcriptional start s...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Yeung F,Chung E,Guess MG,Bell ML,Leinwand LA

    更新日期:2012-08-01 00:00:00

  • Sense and antisense transcription are associated with distinct chromatin architectures across genes.

    abstract::Genes from yeast to mammals are frequently subject to non-coding transcription of their antisense strand; however the genome-wide role for antisense transcription remains elusive. As transcription influences chromatin structure, we took a genome-wide approach to assess which chromatin features are associated with nasc...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Murray SC,Haenni S,Howe FS,Fischl H,Chocian K,Nair A,Mellor J

    更新日期:2015-09-18 00:00:00

  • The cAMP response element binding protein, CREB, is a potent inhibitor of diverse transcriptional activators.

    abstract::Cyclic AMP response element binding protein (CREB) activates transcription of cAMP response element (CRE)-containing promoters following an elevation of intracellular cAMP. Here we show that CREB and the highly related protein ATF-1 are also potent transcription inhibitors. Strikingly, CREB inhibits transcription of m...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Lemaigre FP,Ace CI,Green MR

    更新日期:1993-06-25 00:00:00

  • A processed chicken pseudogene (CPS1) related to the ras oncogene superfamily.

    abstract::We describe the first polyA-containing processed pseudogene reported in the chicken. It includes a 0.52 kb open reading frame which could encode a 175 amino acid protein. The putative protein shows extensive homology to the ras oncogene superfamily, being most closely related to the yeast protein YP2. It is one of the...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Alsip GR,Konkel DA

    更新日期:1986-03-11 00:00:00

  • HotSpot Wizard 3.0: web server for automated design of mutations and smart libraries based on sequence input information.

    abstract::HotSpot Wizard is a web server used for the automated identification of hotspots in semi-rational protein design to give improved protein stability, catalytic activity, substrate specificity and enantioselectivity. Since there are three orders of magnitude fewer protein structures than sequences in bioinformatic datab...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Sumbalova L,Stourac J,Martinek T,Bednar D,Damborsky J

    更新日期:2018-07-02 00:00:00

  • Pseudorevertants of a lac promoter mutation reveal overlapping nascent promoters.

    abstract::Four pseudorevertants of a -10 region lacP mutation were isolated. Three of these mutations were found to activate nascent promoters. These mutations were: a -2 G/C----A/T change (-2A) promoting transcription at position +11, a +1 A/T----T/A change (+1T) promoting transcription initiation at position +13, and a +10 C/...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Karls R,Schulz V,Jovanovich SB,Flynn S,Pak A,Reznikoff WS

    更新日期:1989-05-25 00:00:00

  • Multiplexed tandem PCR: gene profiling from small amounts of RNA using SYBR Green detection.

    abstract::Multiplexed tandem PCR (MT-PCR) is a process for highly multiplexed gene expression profiling. In the first step, multiple primer pairs are added to the RNA to be analysed together with reverse transcriptase and Taq DNA polymerase. Following reverse transcription, the multiplexed amplicons are simultaneously amplified...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Stanley KK,Szewczuk E

    更新日期:2005-11-24 00:00:00

  • A crystalline end product produced by the hydrolytic cleavage of an RNA-like fragment by an organometallointercalator: 1,10-phenanthroline-platinum(II)-ethylenediamine-cytidine 3' monophosphate.

    abstract::1,10-Phenanthroline-platinum(II)-ethylenediamine ( PEPt ) forms a crystalline complex with cytidine-3'-phosphate (3'-CMP) and its structure has been determined by X-ray crystallography. 3'-CMP molecules are hemiprotonated and form hydrogen-bonded pairs that stack above and below the phenanthroline-platinum(II) drug mo...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Vijay-Kumar S,Sakore TD,Sobell HM

    更新日期:1984-04-25 00:00:00

  • Conformation of DNA in chromatin reconstituted from poly [d(A-T)] and the core histones.

    abstract::Present results provide direct evidence of the nature of a conformational change in DNA when nucleosomes are formed from core histones and poly [d(A-T)]. First, we have found some features which have characteristic aspects of the A like conformation of DNA. Thus, an increased contribution due to a sugar conformation c...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Brahms S,Brahmachari SK,Angelier N,Brahms JG

    更新日期:1981-10-10 00:00:00

  • Phosphorylation of human oxoguanine DNA glycosylase (alpha-OGG1) modulates its function.

    abstract::Oxoguanine DNA glycosylase (OGG1) initiates the repair of 8-oxoguanine (8-oxoG), a major oxidative DNA base modification that has been directly implicated in cancer and aging. OGG1 functions in the base excision repair pathway, for which a molecular hand-off mechanism has been proposed. To date, only one functional an...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Hu J,Imam SZ,Hashiguchi K,de Souza-Pinto NC,Bohr VA

    更新日期:2005-06-07 00:00:00

  • Regulation and structure of an Escherichia coli gene coding for an outer membrane protein involved in export of K88ab fimbrial subunits.

    abstract::The nucleotide sequence of the faeD gene of Escherichia coli and the amino acid sequence of its product is presented. The faeD product is an outer membrane protein required for transport of K88ab fimbrial subunits across the outer membrane. The protein is synthesized as a precursor containing a signal peptide, and the...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Mooi FR,Claassen I,Bakker D,Kuipers H,de Graaf FK

    更新日期:1986-03-25 00:00:00

  • Molecular mechanism of introduction of the hidden break into the 28S rRNA of insects: implication based on structural studies.

    abstract::We determined the structure around the gap region between 28S alpha and 28S beta rRNA of Bombyx mori, a lepidopteran insect, to know the introduction mechanism of the hidden break, an interruption of the phosphodiester bond specific to the 28S rRNA of protostomes. Sequence analysis and S1 nuclease mapping suggested th...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Fujiwara H,Ishikawa H

    更新日期:1986-08-26 00:00:00

  • BioModels-15 years of sharing computational models in life science.

    abstract::Computational modelling has become increasingly common in life science research. To provide a platform to support universal sharing, easy accessibility and model reproducibility, BioModels (, a repository for mathematical models, was established in 2005. The current BioModels platform ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Malik-Sheriff RS,Glont M,Nguyen TVN,Tiwari K,Roberts MG,Xavier A,Vu MT,Men J,Maire M,Kananathan S,Fairbanks EL,Meyer JP,Arankalle C,Varusai TM,Knight-Schrijver V,Li L,Dueñas-Roca C,Dass G,Keating SM,Park YM,Buso N

    更新日期:2020-01-08 00:00:00

  • Superhelical stress restrained in plasmid DNA during repair synthesis initiated by the UvrA, B and C proteins in vitro.

    abstract::Purified UvrA, UvrB, UvrC, UvrD, PolA and Lig proteins from Escherichia coli have been used to assess the effect of nucleotide excision repair on the conformation of native negatively supercoiled plasmid DNA in an in vitro test system. The analysis of labeled reaction products on specific gel systems suggests that the...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Backendorf C,Olsthoorn R,van de Putte P

    更新日期:1989-12-25 00:00:00

  • Different strategies of differential display: areas of application.

    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

    pub_type: 杂志文章,评审


    authors: Matz MV,Lukyanov SA

    更新日期:1998-12-15 00:00:00

  • A one- and two-dimensional NMR study of the B to Z transition of (m5dC-dG)3 in methanolic solution.

    abstract::The deoxyribose hexanucleoside pentaphosphate (m5dC-dG)3 has been studied by 500 MHz 1H NMR in D2O (0.1 M NaCl) and in D2O/deuterated methanol mixtures. Two conformations, in slow equilibrium on the NMR time scale, were detected in methanolic solution. Two-dimensional nuclear Overhauser effect (NOE) experiments were u...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Feigon J,Wang AH,van der Marel GA,Van Boom JH,Rich A

    更新日期:1984-01-25 00:00:00

  • Changing the target base specificity of the EcoRV DNA methyltransferase by rational de novo protein-design.

    abstract::The EcoRV DNA-(adenine-N(6))-methyltransferase (M.EcoRV) specifically modifies the first adenine residue within GATATC sequences. During catalysis, the enzyme flips its target base out of the DNA helix and binds it into a target base binding pocket which is formed in part by Lys16 and Tyr196. A cytosine residue is acc...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Roth M,Jeltsch A

    更新日期:2001-08-01 00:00:00

  • 3' Alu PCR: a simple and rapid method to isolate human polymorphic markers.

    abstract::Microsatellites, such as (TG)n found at random throughout the genome, or as 3' extensions of Alu sequences are being increasingly used as genetic markers because of their pluriallelic character. The search for polymorphic microsatellites is time consuming, however, as it is necessary to sequence clones containing the ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Charlieu JP,Laurent AM,Carter DA,Bellis M,Roizès G

    更新日期:1992-03-25 00:00:00

  • Experimental validation of novel and conventional approaches to quantitative real-time PCR data analysis.

    abstract::Real-time PCR is being used increasingly as the method of choice for mRNA quantification, allowing rapid analysis of gene expression from low quantities of starting template. Despite a wide range of approaches, the same principles underlie all data analysis, with standard approaches broadly classified as either absolu...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Peirson SN,Butler JN,Foster RG

    更新日期:2003-07-15 00:00:00

  • Structural and functional properties of ribosomal protein L7 from humans and rodents.

    abstract::By subtractive screening of a library made from mRNA of lipopolysaccharide (LPS)-stimulated mouse B lymphocytes we isolated cDNA-clones encoding the ribosomal protein L7. Human L7 mRNA was cloned from activated T-lymphocytes. Although no specific function of L7 in the translation apparatus is known as yet, it should b...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Hemmerich P,von Mikecz A,Neumann F,Sözeri O,Wolff-Vorbeck G,Zoebelein R,Krawinkel U

    更新日期:1993-01-25 00:00:00