Abstract:
:The compilation of 5S rRNA and 5S rRNA gene nucleotide sequences as of 30 September 1996, contains a total of 1661 primary structures of 5S rRNAs or their genes, which is an increase of 928 new sequence entries over the last compilation. It covers sequences from 54 archaea, 449 eubacteria, 34 plastids, nine mitochondria and 430 eukaryotes. The databank uses the format of the EMBL Nucleotide Sequence Data Library complemented by a Sequence Alignment (SA) field including secondary structure information. The taxonomic classification of organisms was totally updated. Now the database is also available via anonymous FTP or WWW.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Specht T,Szymanski M,Barciszewska MZ,Barciszewski J,Erdmann VAdoi
10.1093/nar/25.1.96subject
Has Abstractpub_date
1997-01-01 00:00:00pages
96-7issue
1eissn
0305-1048issn
1362-4962pii
gka049journal_volume
25pub_type
杂志文章abstract::Previous studies have implicated the DE-1 (-111/-106) and alpha A-CRYBP1 (-66/-57) sites for activity of the mouse alpha A-crystallin promoter in transiently transfected lens cells. Here we have used the bacterial chloramphenicol acetyltransferase (CAT) reporter gene to test the functional importance of the putative D...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/21.11.2633
更新日期:1993-06-11 00:00:00
abstract::Functionality of the non-coding transcripts encoded by the human genome is the coveted goal of the modern genomics research. While commonly relied on the classical methods of forward genetics, integration of different genomics datasets in a global Systems Biology fashion presents a more productive avenue of achieving ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw162
更新日期:2016-04-20 00:00:00
abstract::The androgen receptor (AR) is a member of the nuclear hormone receptor family of transcription factors that plays a critical role in regulating expression of genes involved in prostate development and transformation. Upon hormone binding, the AR associates with numerous co-regulator proteins that regulate the activati...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq861
更新日期:2011-03-01 00:00:00
abstract::The chromatin structure of yeast ribosomal DNA was analyzed in vivo by crosslinking intact cells with psoralen. We found that in exponentially growing cultures the regions coding for the 35S rRNA precursor fall into two distinct classes. One class was highly accessible to psoralen and associated with nascent RNAs, cha...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/21.10.2331
更新日期:1993-05-25 00:00:00
abstract::The nucleotide sequence of Neurospora crassa 5.8 S rDNA and adjacent regions has been determined. The deduced 5.8 S rRNA sequence of Neurospora differs from the 5.8 S rRNA sequence of Saccharomyces cerevisiae at 13 of 158 residues. Nine of these differences are clustered in a segment capable of forming a short hairpin...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/6.7.2561
更新日期:1979-06-11 00:00:00
abstract::Transcription and translation are coupled in bacteria, meaning that translation takes place co-transcriptionally. During transcription-translation, both machineries mutually affect each others' functions, which is important for regulation of gene expression. Analysis of interactions between RNA polymerase (RNAP) and t...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr1262
更新日期:2012-03-01 00:00:00
abstract::Nuclei isolated from cultured mouse and rat cell lines initiated pre-rRNA chains at the correct site and with the correct nucleotide specificity (A for mouse, G for rat). Nucleic acid filter hybridization and S1 nuclease mapping were used to analyze the RNA products initiated with nucleoside (beta-S)triphosphates. Ini...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/12.21.8115
更新日期:1984-11-12 00:00:00
abstract::The HIV-1 viral infectivity factor (Vif) allows productive infection of non-permissive cells (including most natural HIV-1 targets) by counteracting the cellular cytosine deaminases APOBEC-3G (hA3G) and hA3F. The Vif-induced degradation of these restriction factors by the proteasome has been extensively studied, but l...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp1009
更新日期:2010-01-01 00:00:00
abstract::Cellular liquid-liquid phase separation (LLPS) results in the formation of dynamic granules that play an important role in many biological processes. On a molecular level, the clustering of proteins into a confined space results from an indefinite network of intermolecular interactions. Here, we introduce and exploit ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx353
更新日期:2017-06-20 00:00:00
abstract::Most human genes generate multiple transcript isoforms. The differential expression of these isoforms can help specify cell types. Diverse transcript isoforms arise from the use of alternative transcription start sites, polyadenylation sites and splice sites; however, the relative contribution of these processes to is...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx1165
更新日期:2018-01-25 00:00:00
abstract::The nucleotide sequences 3' to the translational termination codons in a collection of human genes have been analysed for evidence of a preferred 3' context for natural UAG codons. The aim was to see whether human UAG contexts can be related to the recent demonstration of the effects of 3' context on nonsense suppress...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.1.15
更新日期:1994-01-11 00:00:00
abstract::Autosomal dominant and/or recessive progressive external ophthalmoplegia (ad/arPEO) is associated with mtDNA mutagenesis. It can be caused by mutations in three nuclear genes, encoding the adenine nucleotide translocator 1, the mitochondrial helicase Twinkle or DNA polymerase gamma (POLG). How mutations in these genes...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh634
更新日期:2004-06-04 00:00:00
abstract::Restriction mapping demonstrated the presence of several distinct proviral forms of mouse mammary tumor virus in the genome of GR mice. One of these proviruses (GR-MTV-2) was highly amplified in GR 3A cells, a cell line derived from a GR mammary tumor. By the criterion of restriction mapping, the amplified GR-MTV-2 pr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/8.23.5715
更新日期:1980-12-11 00:00:00
abstract::The entire intervening sequence of Tetrahymena thermophila ribosomal DNA has been determined. It is 413 nucleotides long and has the same splice junctions as those in T. pigmentosa. There is 93% homology between the intervening sequences in the two species, and 100% homology between their adjacent 26S RNA coding regio...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/10.9.2809
更新日期:1982-05-11 00:00:00
abstract::High throughput sequencing (HTS) platforms generate unprecedented amounts of data that introduce challenges for processing and downstream analysis. While tools that report the 'best' mapping location of each read provide a fast way to process HTS data, they are not suitable for many types of downstream analysis such a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku370
更新日期:2014-07-01 00:00:00
abstract::Control of RNA processing plays a major role in HIV-1 gene expression. To explore the role of several hnRNP proteins in this process, we carried out a siRNA screen to examine the effect of depletion of hnRNPs A1, A2, D, H, I and K on HIV-1 gene expression. While loss of hnRNPs H, I or K had little effect, depletion of...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr1238
更新日期:2012-04-01 00:00:00
abstract::Metal ions are essential for the folding of RNA into stable tertiary structures and for the catalytic activity of some RNA enzymes. To aid in the study of the roles of metal ions in RNA structural biology, we have created MeRNA (Metals in RNA), a comprehensive compilation of all metal binding sites identified in RNA 3...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkj058
更新日期:2006-01-01 00:00:00
abstract::Post-translational modifications (PTMs) regulate many aspects of protein function and are indispensable for the spatio-temporal regulation of cellular processes. The proteome-wide identification of PTM targets has made significant progress in recent years, as has the characterization of their writers, readers, modifie...
journal_title:Nucleic acids research
pub_type: 杂志文章,评审
doi:10.1093/nar/gkv1383
更新日期:2016-02-18 00:00:00
abstract::The nucleolus is a unique structural component of interphase nuclei where the ribosomal genes, trans-cribed by RNA polymerase I (RNA pol I), are organized. In the present study, the repair of UV-induced photolesions was investigated in the ribosomal DNA (rDNA) in relation to RNA pol I transcription. We used hamster ce...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.12.2511
更新日期:1999-06-15 00:00:00
abstract::An important model system for studying the process leading to productive transcription is provided by the superfamily of nuclear receptors, which are for the most part ligand-controlled transcription factors. Over the past years several 'orphan' nuclear receptors have been isolated for which no ligand has yet been ide...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/29.16.3424
更新日期:2001-08-15 00:00:00
abstract::Motor proteins that translocate on nucleic acids are key players in gene expression and maintenance. While the function of these proteins is diverse, they are driven by highly conserved core motor domains. In transcription-coupled DNA repair, motor activity serves to remove RNA polymerase stalled on damaged DNA, makin...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp680
更新日期:2009-10-01 00:00:00
abstract::We show that nucleic acid structures may be conveniently and inexpensively characterized by their UV thermal difference spectra. A thermal difference spectrum (TDS) is obtained for a nucleic acid by simply recording the ultraviolet absorbance spectra of the unfolded and folded states at temperatures above and below it...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gni134
更新日期:2005-09-12 00:00:00
abstract::In Trypanosoma brucei the genes are organised into long polycistronic transcription units and only three promoters for protein-encoding genes and a single terminator have been characterised. These promoters recruit a polI-like RNA polymerase for the transcription units encoding the two major stage-specific antigens of...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.2.597
更新日期:2000-01-15 00:00:00
abstract::Ribosomal protein L4 of Escherichia coli regulates expression of its own eleven gene S10 operon both by inhibiting translation and by stimulating premature termination of transcription. Both regulatory processes presumably involve L4 recognition of the S10 leader RNA. To help define L4's regulatory target, we have inv...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/21.10.2429
更新日期:1993-05-25 00:00:00
abstract::This is the first report of a complete mitochondrial genome sequence from a photosynthetic member of the stramenopiles, the chrysophyte alga Chrysodidymus synuroideus. The circular-mapping mitochondrial DNA (mtDNA) of 34 119 bp contains 58 densely packed genes (all without introns) and five unique open reading frames ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.13.2512
更新日期:2000-07-01 00:00:00
abstract::RNA interference represents a potent intervention for cancer treatment but requires a robust delivery agent for transporting gene-modulating molecules, such as small interfering RNAs (siRNAs). Although numerous molecular approaches for siRNA delivery are adequate in vitro, delivery to therapeutic targets in vivo is li...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz900
更新日期:2019-12-02 00:00:00
abstract::Differential melting profiles and denaturation maps are calculated for fdDNA whose sequence of nucleotides has been determined recently. The melting profiles for the total DNA and a number of its restriction fragments are compared with experimental data taken from literature. The comparison enables one to correlate a ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/5.7.2547
更新日期:1978-07-01 00:00:00
abstract::Two of the tRNA's found in rabbit reticulocytes are substrates for a post-transcriptional modification leading to the incorporation of guanine into the polynucleotide chain. The major guanylated tRNA was previously identified as tRNA (His). In the present report we show that the minor guanylated tRNA is tRNA (Asn), an...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/3.10.2521
更新日期:1976-10-01 00:00:00
abstract::The YaeJ protein is a codon-independent release factor with peptidyl-tRNA hydrolysis (PTH) activity, and functions as a stalled-ribosome rescue factor in Escherichia coli. To identify residues required for YaeJ function, we performed mutational analysis for in vitro PTH activity towards rescue of ribosomes stalled on ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt1280
更新日期:2014-03-01 00:00:00
abstract::Natural antisense transcripts are at least partially complementary to their sense transcripts. Cis-Sense/Antisense pairs (cis-SAs) have been extensively characterized and known to play diverse regulatory roles, whereas trans-Sense/Antisense pairs (trans-SAs) in animals are poorly studied. We identified long trans-SAs ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkn470
更新日期:2008-09-01 00:00:00