A conserved U-rich RNA region implicated in regulation of translation in Plasmodium female gametocytes.

abstract：:Alternative first exons diversify the transcriptomes of eukaryotes by producing variants of the 5' Untranslated Regions (5'UTRs) and N-terminal coding sequences. Accurate transcriptome-wide detection of alternative first exons typically requires specialized experimental approaches that are designed to identify the 5' ...

journal_title：Nucleic acids research

authors： Qin Z,Stoilov P,Zhang X,Xing Y

更新日期：2018-05-04 00:00:00

abstract：:The interplay between aromatic stacking and hydrogen bonding in nucleobases has been investigated via high-level quantum chemical calculations. The experimentally observed stacking arrangement between consecutive bases in DNA and RNA/DNA double helices is shown to enhance their hydrogen bonding ability as opposed to g...

journal_title：Nucleic acids research

authors： Mignon P,Loverix S,Steyaert J,Geerlings P

更新日期：2005-03-23 00:00:00

abstract：:In addition to maintaining the GenBank nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides analysis and retrieval resources for the data in GenBank and other biological data made available through NCBI's Web site. NCBI resources include Entrez, the Entrez Programming Utili...

journal_title：Nucleic acids research

authors： Wheeler DL,Barrett T,Benson DA,Bryant SH,Canese K,Chetvernin V,Church DM,DiCuccio M,Edgar R,Federhen S,Geer LY,Helmberg W,Kapustin Y,Kenton DL,Khovayko O,Lipman DJ,Madden TL,Maglott DR,Ostell J,Pruitt KD,Schuler G

更新日期：2006-01-01 00:00:00

abstract：:The deoxyoligonucleotide 5' AATCGGGCATGGATT (15-mer) was synthesized containing 12 phosphoramidate linkages derived from 2 primary and 2 secondary amines. The oligonucleotides were purified by reverse phase HPLC and characterized by PAGE. The thermal stability of the duplexes derived from these compounds, when hybridi...

journal_title：Nucleic acids research

authors： Froehler B,Ng P,Matteucci M

更新日期：1988-06-10 00:00:00

abstract：:The nucleotide sequence of a 2.14 kb fragment of Bacillus subtilis DNA containing the citG gene encoding fumarase was determined using the dideoxy chain termination method. The citG coding region of 1392 base pairs (464 codons) was identified, and the deduced Mr (50425) is in good agreement with that of the protein id...

journal_title：Nucleic acids research

authors： Miles JS,Guest JR

更新日期：1985-01-11 00:00:00

abstract：:Most RNA molecules collapse rapidly and reach the native state through a pathway that contains numerous traps and unproductive intermediates. The D135 group II intron ribozyme is unusual in that it can fold slowly and directly to the native state, despite its large size and structural complexity. Here we use hydroxyl ...

journal_title：Nucleic acids research

authors： Su LJ,Waldsich C,Pyle AM

更新日期：2005-11-27 00:00:00

abstract：:Deregulation of mini-chromosome maintenance (MCM) proteins is associated with genomic instability and cancer. MCM complexes are recruited to replication origins for genome duplication. Paradoxically, MCM proteins are in excess than the number of origins and are associated with chromatin regions away from the origins d...

journal_title：Nucleic acids research

authors： Slaymaker IM,Fu Y,Toso DB,Ranatunga N,Brewster A,Forsburg SL,Zhou ZH,Chen XS

更新日期：2013-03-01 00:00:00

abstract：:The RNA 3D Structure-to-Multiple Sequence Alignment Server (R3D-2-MSA) is a new web service that seamlessly links RNA three-dimensional (3D) structures to high-quality RNA multiple sequence alignments (MSAs) from diverse biological sources. In this first release, R3D-2-MSA provides manual and programmatic access to cu...

journal_title：Nucleic acids research

authors： Cannone JJ,Sweeney BA,Petrov AI,Gutell RR,Zirbel CL,Leontis N

更新日期：2015-07-01 00:00:00

abstract：:Heterochromatin protein 1 (HP1) is an evolutionarily conserved chromosomal protein that binds to lysine 9-methylated histone H3 (H3K9me), a hallmark of heterochromatin. Although HP1 phosphorylation has been described in several organisms, the biological implications of this modification remain largely elusive. Here we...

journal_title：Nucleic acids research

authors： Nishibuchi G,Machida S,Osakabe A,Murakoshi H,Hiragami-Hamada K,Nakagawa R,Fischle W,Nishimura Y,Kurumizaka H,Tagami H,Nakayama J

更新日期：2014-11-10 00:00:00

abstract：:More than 20 different heterogeneous nuclear ribonucleoproteins (hnRNPs) are associated with pre-mRNAs in the nucleus of mammalian cells and these proteins appear to influence pre-mRNA processing and other aspects of mRNA metabolism and transport. The arrangement of hnRNP proteins on pre-mRNAs is likely to be unique f...

journal_title：Nucleic acids research

authors： Matunis MJ,Xing J,Dreyfuss G

更新日期：1994-03-25 00:00:00

abstract：:Large-scale cooperative helix opening has been previously observed in A + T rich sequences contained in supercoiled DNA molecules at elevated temperatures. Since it is well known that helix melting of linear DNA is suppressed by addition of salt, we have investigated the effects of added salts on opening transitions i...

journal_title：Nucleic acids research

authors： Bowater RP,Aboul-ela F,Lilley DM

更新日期：1994-06-11 00:00:00

abstract：:Nuclear factor I (NFI) is a site-specific DNA binding protein required for the replication of adenovirus type 2 DNA in vitro and in vivo. To study sequence requirements for the interaction of NFI with DNA, we have measured the binding of the protein to a variety of synthetic sites. Binding sites for NFI (FIB sites) we...

journal_title：Nucleic acids research

authors： Gronostajski RM

更新日期：1987-07-24 00:00:00

abstract：:The endoribonuclease RNase E is a key enzyme in RNA metabolism for many bacterial species. In Escherichia coli, RNase E contributes to the majority of RNA turnover and processing events, and the enzyme has been extensively characterized as the central component of the RNA degradosome assembly. A similar RNA degradosom...

journal_title：Nucleic acids research

authors： Voss JE,Luisi BF,Hardwick SW

更新日期：2014-12-01 00:00:00

abstract：:Our database on large ribosomal subunit RNA contained 334 sequences in July, 1995. All sequences in the database are aligned, taking into account secondary structure. The aligned sequences are provided, together with incorporated secondary structure information, in several computer-readable formats. These data can eas...

journal_title：Nucleic acids research

authors： De Rijk P,Van de Peer Y,De Wachter R

更新日期：1996-01-01 00:00:00

abstract：:Granulocyte macrophage-colony stimulating factor (GM-CSF) is produced by T cells, but not B cells, in response to immune signals. GM-CSF gene activation in response to T-cell stimulation requires remodelling of chromatin associated with the gene promoter, and these changes do not occur in B cells. While the CpG methyl...

journal_title：Nucleic acids research

authors： Brettingham-Moore KH,Sprod OR,Chen X,Oakford P,Shannon MF,Holloway AF

更新日期：2008-05-01 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：:LINKER was developed as an online server to assist biomedical researchers to design linker sequences for constructing functional fusion proteins. The program automatically generates a set of peptide sequences that are known to adopt extended conformations as determined by X-ray crystallography and NMR. In addition to ...

journal_title：Nucleic acids research

authors： Xue F,Gu Z,Feng JA

更新日期：2004-07-01 00:00:00

abstract：:Aminoglycosides antibiotics negate dissociation and recycling of the bacterial ribosome's subunits by binding to Helix 69 (H69) of 23S rRNA. The differential binding of various aminoglycosides to the chemically synthesized terminal domains of the Escherichia coli and human H69 has been characterized using spectroscopy...

journal_title：Nucleic acids research

authors： Scheunemann AE,Graham WD,Vendeix FA,Agris PF

更新日期：2010-05-01 00:00:00

abstract：:The Yeast Protein Localization database (YPL.db) contains information about the localization patterns of yeast proteins resulting from microscopic analyses. The data and parameters of the experiments to obtain the localization information, together with images from confocal or video microscopy, are stored in a relatio...

journal_title：Nucleic acids research

authors： Habeler G,Natter K,Thallinger GG,Crawford ME,Kohlwein SD,Trajanoski Z

更新日期：2002-01-01 00:00:00

abstract：:Wybutine (Ywye), situated next to the 3'-side of the anticodon of tRNAPhe from Saccharomyces cerevisiae, can be photo-crosslinked to mRNA when bound to Escherichia coli ribosomes. Crosslinking can be obtained with poly(U) as well as with oligonucleotides such as pAUGUUU or p(U)6. In order to identify the site of react...

journal_title：Nucleic acids research

authors： Steiner G,Lührmann R,Kuechler E

更新日期：1984-11-12 00:00:00

abstract：:Type I CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats)-Cas (CRISPR-associated) systems exist in bacterial and archaeal organisms and provide immunity against foreign DNA. The Cas protein content of the DNA interference complexes (termed Cascade) varies between different CRISPR-Cas subtypes. A minima...

journal_title：Nucleic acids research

authors： Dwarakanath S,Brenzinger S,Gleditzsch D,Plagens A,Klingl A,Thormann K,Randau L

更新日期：2015-10-15 00:00:00

abstract：:PsiB protein of plasmid R6-5 inhibits the induction of the SOS pathway. The F sex factor also carries a psiB gene homologous to that of R6-5. Yet, it fails to inhibit SOS induction. In order to solve this difference, we characterized the psiB genes of R6-5 and F. We found that (i) the sequences of the two psiB genes s...

journal_title：Nucleic acids research

authors： Dutreix M,Bäckman A,Célérier J,Bagdasarian MM,Sommer S,Bailone A,Devoret R,Bagdasarian M

更新日期：1988-11-25 00:00:00

abstract：:Mature chicken erythrocyte polynucleosomes which are soluble at physiological ionic strength are enriched in beta-globin DNA sequences. Vitellogenin chromatin, which is not expressed in this tissue, is found in aggregation prone, salt insoluble chromatin. There is a direct correlation between the size of soluble fragm...

journal_title：Nucleic acids research

authors： Ridsdale JA,Davie JR

更新日期：1987-02-11 00:00:00

abstract：:DNA predominantly contains Watson-Crick (WC) base pairs, but a non-negligible fraction of base pairs are in the Hoogsteen (HG) hydrogen bonding motif at any time. In HG, the purine is rotated ∼180° relative to the WC motif. The transitions between WC and HG may play a role in recognition and replication, but are diffi...

journal_title：Nucleic acids research

authors： Vreede J,Pérez de Alba Ortíz A,Bolhuis PG,Swenson DWH

更新日期：2019-12-02 00:00:00

abstract：:The genetic etiology of premature ovarian insufficiency (POI) has been well established to date, however, the role of long noncoding RNAs (lncRNAs) in POI is largely unknown. In this study, we identified a down-expressed lncRNA HCP5 in granulosa cells (GCs) from biochemical POI (bPOI) patients, which impaired DNA dama...

journal_title：Nucleic acids research

authors： Wang X,Zhang X,Dang Y,Li D,Lu G,Chan WY,Leung PCK,Zhao S,Qin Y,Chen ZJ

更新日期：2020-05-07 00:00:00

abstract：:RNA sequencing has become an important method to perform hypothesis-free characterization of global gene expression. One of the limitations of RNA sequencing is that most sequence reads represent highly expressed transcripts, whereas low level transcripts are challenging to detect. To combine the benefits of tradition...

journal_title：Nucleic acids research

authors： Halvardson J,Zaghlool A,Feuk L

更新日期：2013-01-07 00:00:00

abstract：:The shape of the chromosomal DNA of the sulfur-dependent archaebacterium Sulfolobus acidocaldarius was analyzed by the pulsed-field gel electrophoresis(PFGE). S.acidocaldarius DNA digested with Notl showed two DNA bands at around 1.0 Mbp and 2.1 Mbp. Notl-linking clones were isolated from the library of S.acidocaldari...

journal_title：Nucleic acids research

authors： Yamagishi A,Oshima T

更新日期：1990-03-11 00:00:00

abstract：:ModBase (http://salilab.org/modbase) is a database of annotated comparative protein structure models. The models are calculated by ModPipe, an automated modeling pipeline that relies primarily on Modeller for fold assignment, sequence-structure alignment, model building and model assessment (http://salilab.org/modelle...

journal_title：Nucleic acids research

authors： Pieper U,Webb BM,Dong GQ,Schneidman-Duhovny D,Fan H,Kim SJ,Khuri N,Spill YG,Weinkam P,Hammel M,Tainer JA,Nilges M,Sali A

更新日期：2014-01-01 00:00:00

abstract：:An unexpectedly high number of regulatory RNAs have been recently discovered that fine-tune the function of genes at all levels of expression. We employed Genomic SELEX, a method to identify protein-binding RNAs encoded in the genome, to search for further regulatory RNAs in Escherichia coli. We used the global regula...

journal_title：Nucleic acids research

authors： Lorenz C,Gesell T,Zimmermann B,Schoeberl U,Bilusic I,Rajkowitsch L,Waldsich C,von Haeseler A,Schroeder R

更新日期：2010-06-01 00:00:00

abstract：:The nucleotide sequence of the 5S ribosomal RNA of Streptococcus cremoris has been determined. The sequence is 5' (sequence in text) 3'. Comparison of the S. cremoris 5S RNA sequence to an updated prokaryotic generalized 5S RNA structural model shows that this 5S RNA contains some unusual structural features. These fe...

journal_title：Nucleic acids research

authors： Neimark H,Andersen J,Delihas N

更新日期：1983-11-11 00:00:00