Mutational analysis of an essential binding site for the U3 snoRNA in the 5' external transcribed spacer of yeast pre-rRNA.

abstract：:Alternative splicing (AS) is a post-transcriptional process considered to be responsible for the huge diversity of proteins in higher eukaryotes. AS events are regulated by different splicing factors (SFs) that bind to sequence elements on the RNA. SFmap is a web server for predicting putative SF binding sites in geno...

journal_title：Nucleic acids research

authors： Paz I,Akerman M,Dror I,Kosti I,Mandel-Gutfreund Y

更新日期：2010-07-01 00:00:00

abstract：:Eukaryotic genomes contain many endogenous retroviral sequences (ERVs). ERVs are often severely mutated, therefore difficult to detect. A platform independent (Java) program package, RetroTector (ReTe), was constructed. It has three basic modules: (i) detection of candidate long terminal repeats (LTRs), (ii) detection...

journal_title：Nucleic acids research

authors： Sperber GO,Airola T,Jern P,Blomberg J

更新日期：2007-01-01 00:00:00

abstract：:The specific DNA binding ligand netropsin selectively blocks dA-dT base pairs in clusters containing two or more consecutive thymine residues at the dNAase I cleavage sites of DNA. Using CD and UV absorption measurements it is shown, that at various ratios of netropsin to nucleotide concentrations and even at satuatio...

journal_title：Nucleic acids research

authors： Zimmer C,Luck G,Nüske R

更新日期：1980-07-11 00:00:00

abstract：:Hexokinase 2 is an essential factor for signalling repression through the Saccharomyces cerevisiae high-glucose sensing pathway. The main regulatory mechanism that controls the HXK2 gene expression in yeast is mediated by the Rgt1 and Med8 transcription factors, which repress HXK2 expression in low-glucose containing ...

journal_title：Nucleic acids research

authors： Palomino A,Herrero P,Moreno F

更新日期：2006-03-09 00:00:00

abstract：:The pol gene of all retroviruses is expressed as a gag-pol fusion protein which is proteolytically processed to produce all viral enzymes. In the human immunodeficiency virus (HIV), the gag and pol genes overlap by 241 nucleotides with pol in the -1 phase with respect to gag. The gag-pol fusion is produced via a -1 ri...

journal_title：Nucleic acids research

authors： Vickers TA,Ecker DJ

更新日期：1992-08-11 00:00:00

abstract：:The ribosomal proteins L4 and L22 form part of the peptide exit tunnel in the large ribosomal subunit. In Escherichia coli, alterations in either of these proteins can confer resistance to the macrolide antibiotic, erythromycin. The structures of the 30S as well as the 50S subunits from each antibiotic resistant mutan...

journal_title：Nucleic acids research

authors： O'Connor M,Gregory ST,Dahlberg AE

更新日期：2004-10-27 00:00:00

abstract：:The Bcl-2 protein has an anti-apoptotic effect in neuronal and other cell types. We show for the first time that the Bcl-2 promoter is activated by the neuronal survival factor nerve growth factor (NGF) and that this effect is dependent on a region of the promoter from -1472 to -1414. This activation requires the Rap-...

journal_title：Nucleic acids research

authors： Liu YZ,Boxer LM,Latchman DS

更新日期：1999-05-15 00:00:00

abstract：:Modified bases, such as O6-methylguanines, are produced in cells exposed to alkylating agents and cause apoptosis. In human cells treated with N-methyl-N-nitrosourea, we detected a protein complex composed of MutSalpha, MutLalpha and PCNA on damaged DNA by immunoprecipitation method using chromatin extracts, in which ...

journal_title：Nucleic acids research

authors： Hidaka M,Takagi Y,Takano TY,Sekiguchi M

更新日期：2005-10-04 00:00:00

abstract：:The major mRNA degradation pathway involves deadenylation of the target molecule followed by decapping and, finally, 5'-->3' exonuclease digestion of the mRNA body. While yeast factors involved in the decapping and exonuclease degradation steps have been identified, the nature of the factor(s) involved in the deadenyl...

journal_title：Nucleic acids research

authors： Daugeron MC,Mauxion F,Séraphin B

更新日期：2001-06-15 00:00:00

abstract：:RNA-protein complexes are essential in mediating important fundamental cellular processes, such as transport and localization. In particular, ncRNA-protein interactions play an important role in post-transcriptional gene regulation like mRNA localization, mRNA stabilization, poly-adenylation, splicing and translation....

journal_title：Nucleic acids research

authors： Suresh V,Liu L,Adjeroh D,Zhou X

更新日期：2015-02-18 00:00:00

abstract：:The crystal structure of d(CATGGGCCCATG)(2) shows unique stacking patterns of a stable B<-->A-DNA intermediate. We evaluated intrinsic base stacking energies in this crystal structure using an ab initio quantum mechanical method. We found that all crystal base pair steps have stacking energies close to their values in...

journal_title：Nucleic acids research

authors： Poner J,Florián J,Ng HL,Poner JE,Packová N

更新日期：2000-12-15 00:00:00

abstract：:In order to facilitate the direct computation of the sizes of DNA fragments separated by gel electrophoresis, we have written and evaluated programmes for the Hewlett-Packard 41C programmable calculator. The sizes estimated for DNA fragments of known length using some of these programmes were found to be more accurate...

journal_title：Nucleic acids research

authors： Gough EJ,Gough NM

更新日期：1984-01-11 00:00:00

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

authors： Santangelo PJ,Bao G

更新日期：2007-01-01 00:00:00

abstract：:Immunotoxoin-mediated cell targeting (IMCT) is a technique for conditionally ablating specific cell types based on the cytotoxic activity of a recombinant immunotoxin anti-Tac (Fv)-PE40. To examine the feasibility of this technique for the negative selection in mouse embryonic stem (ES) cells, we investigated the resp...

journal_title：Nucleic acids research

authors： Kobayashi K,Ohye T,Pastan I,Nagatsu T

更新日期：1996-09-15 00:00:00

abstract：:In an extensive analysis, using a range of restriction endonucleases, HinfI and TaqI were found to differentiate satellites I, II and III & IV. Satellite I is resistant to digestion by TaqI, but is cleaved by HinfI to yield three major fragments of approximate size 770, 850 and 950bp, associated in a single length of ...

journal_title：Nucleic acids research

authors： Frommer M,Prosser J,Tkachuk D,Reisner AH,Vincent PC

更新日期：1982-01-22 00:00:00

abstract：:In Saccharomyces cerevisiae, the stability of highly repetitive rDNA array is maintained through transcriptional silencing. Recently, a β-1,3-glucanosyltransferase Gas1 has been shown to play a significant role in the regulation of transcriptional silencing in S. cerevisiae. Here, we show that the gas1Δ mutation incre...

journal_title：Nucleic acids research

authors： Ha CW,Kim K,Chang YJ,Kim B,Huh WK

更新日期：2014-07-01 00:00:00

abstract：:The Chemical Effects in Biological Systems database (CEBS) is a comprehensive and unique toxicology resource that compiles individual and summary animal data from the National Toxicology Program (NTP) testing program and other depositors into a single electronic repository. CEBS has undergone significant updates in re...

journal_title：Nucleic acids research

authors： Lea IA,Gong H,Paleja A,Rashid A,Fostel J

更新日期：2017-01-04 00:00:00

abstract：:DNA double-strand breaks are repaired by end-joining or homologous recombination. A key-committing step of recombination is DNA end resection. In resection, phosphorylated CtIP first promotes the endonuclease of MRE11-RAD50-NBS1 (MRN). Subsequently, CtIP also stimulates the WRN/BLM-DNA2 pathway, coordinating thus both...

journal_title：Nucleic acids research

authors： Howard SM,Ceppi I,Anand R,Geiger R,Cejka P

更新日期：2020-06-04 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：:Negative superhelical strain induces the poly(dG)-poly(dC) sequence to adopt two totally different types of triple-helices, either a dG.dG.dC triplex in the presence of Mg(+)+ at both neutral and acidic pHs or a protonated dC+.dG.dC triplex in the absence of Mg(+)+ ions at acidic pH (1). To examine whether there are s...

journal_title：Nucleic acids research

authors： Kohwi-Shigematsu T,Kohwi Y

更新日期：1991-08-11 00:00:00

abstract：:Expression of the wild-type p53 tumor suppressor gene has been found to play an important role in the regulation of cellular proliferation and differentiation. In addition, in many transformed cells and primary tumors, the gene has undergone allelic deletions and mutant forms of the p53 gene are expressed at elevated ...

journal_title：Nucleic acids research

authors： Reisman D,Rotter V

更新日期：1993-01-25 00:00:00

abstract：:In this study, we show that silencing of CITED2 using small-hairpin RNA (shCITED2) induced DNA damage and reduction of ERCC1 gene expression in HEK293, HeLa and H1299 cells, even in the absence of cisplatin. In contrast, ectopic expression of ERCC1 significantly reduced intrinsic and induced DNA damage levels, and res...

journal_title：Nucleic acids research

authors： Liu YC,Chang PY,Chao CC

更新日期：2015-12-15 00:00:00

abstract：:We report the isolation of a novel human POU domain encoding gene named RDC-1. The POU domain of the RDC-1 encoded protein is highly related to the POU domain potentially encoded by the rat brain-3 sequence and to that of the Drosophila I-POU protein; outside of the POU region, RDC-1 is unrelated to any previously cha...

journal_title：Nucleic acids research

authors： Collum RG,Fisher PE,Datta M,Mellis S,Thiele C,Huebner K,Croce CM,Israel MA,Theil T,Moroy T

更新日期：1992-09-25 00:00:00

abstract：:The distribution patterns of shared short repetitive motifs in the expansion segments of the large subunit rRNA genes of different species show that these segments are coevolving as a set and that in two examined vertebrate species the RNA secondary structures are conserved as a consequence of runs of motifs in one re...

journal_title：Nucleic acids research

authors： Hancock JM,Dover GA

更新日期：1990-10-25 00:00:00

abstract：:The DSSP program automatically assigns the secondary structure for each residue from the three-dimensional co-ordinates of a protein structure to one of eight states. However, discrete assignments are incomplete in that they cannot capture the continuum of thermal fluctuations. Therefore, DSSPcont (http://cubic.bioc.c...

journal_title：Nucleic acids research

authors： Carter P,Andersen CA,Rost B

更新日期：2003-07-01 00:00:00

abstract：:The 'Atlas of Genetics and Cytogenetics in Oncology and Haematology' (http://www.infobiogen.fr/services/chromcancer) is an Internet database aimed at genes involved in cancer, cytogenetics and clinical entities in cancer, and cancer-prone diseases. It presents information in concise and updated reviews (cards) or long...

journal_title：Nucleic acids research

authors： Huret JL,Dessen P,Bernheim A

更新日期：2001-01-01 00:00:00

abstract：:A cross index is presented for using the improved selectivity offered by the Hung and Wensink (Nucl. Acids Res. 12, 1863-1874, 1984) method of partially filling in 5'-extensions produced by type II restriction endonucleases. After this treatment, DNA fragments which normally cannot be ligated to one another, can be jo...

journal_title：Nucleic acids research

authors： Korch C

更新日期：1987-04-24 00:00:00

abstract：:PubChem (https://pubchem.ncbi.nlm.nih.gov) is a popular chemical information resource that serves the scientific community as well as the general public, with millions of unique users per month. In the past two years, PubChem made substantial improvements. Data from more than 100 new data sources were added to PubChem...

journal_title：Nucleic acids research

authors： Kim S,Chen J,Cheng T,Gindulyte A,He J,He S,Li Q,Shoemaker BA,Thiessen PA,Yu B,Zaslavsky L,Zhang J,Bolton EE

更新日期：2021-01-08 00:00:00

abstract：:We attempted to use the polymerase chain reaction (PCR) to monitor in vitro recombination in a plasmid containing directly repeated sequences. Some of the plasmid preparations which had not been exposed to recombination conditions were however found to behave in the PCR test as if they had undergone homologous recombi...

journal_title：Nucleic acids research

authors： Marton A,Delbecchi L,Bourgaux P

更新日期：1991-05-11 00:00:00

abstract：:A method for the facile preparation of oligoribonucleotide analogues containing beta-d-allofuranosyl nucleosides with additional functional groups tethered to the 6'-O positions is presented. It is based on the synthesis of two protected nucleosides carrying a 6'-O -bromopentyl and a 6'-O -methylaminopentyl substituen...

journal_title：Nucleic acids research

authors： Wu X,Pitsch S

更新日期：1998-10-01 00:00:00