Abstract:
:Mutational analysis of the 5'-untranslated leader sequence (omega) of tobacco mosaic virus (TMV) was carried out to determine those sequences necessary for the translational enhancement associated with omega. Five deletion mutants, a single base substitution, and a 25 base replacement mutant were tested for alterations in omega's ability to enhance expression of beta-glucuronidase (GUS) mRNA in tobacco mesophyll protoplasts and Escherichia coli or chloramphenicol acetyltransferase (CAT) mRNA in Xenopus laevis oocytes. Alteration of an eight base subsequence required for the binding of a second ribosome resulted in the loss of translational enhancement in X. laevis oocytes but not in protoplasts. Substantial increases in enhancement were observed for several of the mutants in E. coli.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Gallie DR,Sleat DE,Watts JW,Turner PC,Wilson TMdoi
10.1093/nar/16.3.883subject
Has Abstractpub_date
1988-02-11 00:00:00pages
883-93issue
3eissn
0305-1048issn
1362-4962journal_volume
16pub_type
杂志文章abstract::Scanning tunneling microscopy (STM) reveals nanometer scale details of hydrated DNA but the interpretation of the images is controversial because of substrate artifacts and the lack of a theory for image contrast. We demonstrate that we have overcome these problems by identifying five DNA samples by their STM images a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/21.25.5896
更新日期:1993-12-25 00:00:00
abstract::We have isolated the poly(A) polymerase (PAP) encoding gene pla1 [for poly(A) polymerase] from the fission yeast Schizosaccharomyces pombe. Protein sequence alignments with other poly(A) polymerases reveal that pla1 is more closely related to Saccharomyces cerevisiae PAP than to bovine PAP. The two yeast poly(A) polym...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.13.2585
更新日期:1996-07-01 00:00:00
abstract::The replacement of thymidine with 5-bromo-2'-deoxyuridine (BrdU) is well-known to sensitize cells to ionizing radiation and photoirradiation. We reported here the sequence-dependent formation of intrastrand crosslink products from the UVB irradiation of duplex oligodeoxynucleotides harboring a BrdU or its closely rela...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl892
更新日期:2006-01-01 00:00:00
abstract::The complete nucleotide sequence of the Escherichia coli recB gene which encodes a subunit of the ATP-dependent DNase, Exonuclease V, has been determined. The proposed coding region for the RecB protein is 3543 nucleotides long and would encode a polypeptide of 1180 amino acids with a calculated molecular weight of 13...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.21.8573
更新日期:1986-11-11 00:00:00
abstract::Lens epithelium-derived growth factor/p75 (LEDGF/p75) is a transcriptional coactivator involved in stress response, autoimmune disease, cancer and HIV replication. A fusion between the nuclear pore protein NUP98 and LEDGF/p75 has been found in human acute and chronic myeloid leukemia and association of LEDGF/p75 with ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq410
更新日期:2010-10-01 00:00:00
abstract::By in vivo DMS footprint and reporter gene analyses we identified two transcription factor binding sites in the human c-sis/PDGF B gene promoter. The low basal activity of the PDGF B promoter in HeLa and undifferentiated K562 cells, which express low PDGF B mRNA levels, and in PC3 cells, which express a high PDGF B mR...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/23.7.1119
更新日期:1995-04-11 00:00:00
abstract::Nonsense-mediated mRNA decay (NMD) is a molecular pathway of mRNA surveillance that ensures rapid degradation of mRNAs containing premature translation termination codons (PTCs) in eukaryotes. NMD has been shown to also regulate normal gene expression and thus emerged as one of the key post-transcriptional mechanisms ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm461
更新日期:2007-01-01 00:00:00
abstract::The proteins in a cell often assemble into complexes to carry out their functions and play an essential role of biological processes. The PCFamily server identifies template-based homologous protein complexes [called protein complex family (PCF)] and infers functional modules of the query proteins. This server first f...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq464
更新日期:2010-07-01 00:00:00
abstract::Radioactive iodine has been used to probe the relative reactivities of nucleosomal H4 tyrosine residues under various conditions of subphysiological ionic strength. We observe that tyrosine 72 of H4, which is not reactive over the range 20-150 mM NaCl, becomes the predominant site of iodination within H4 when nucleoso...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/9.17.4367
更新日期:1981-09-11 00:00:00
abstract::Our web server, PIZSA (http://cospi.iiserpune.ac.in/pizsa), assesses the likelihood of protein-protein interactions by assigning a Z Score computed from interface residue contacts. Our score takes into account the optimal number of atoms that mediate the interaction between pairs of residues and whether these contacts...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz368
更新日期:2019-07-02 00:00:00
abstract::A method is described which allows selection of sequences which can substitute for the normal AATAAA hexanucleotide involved in polyadenylation of SV40 late mRNAs. Plaques were generated from viral DNA lacking the motif, forcing acquisition of substitute sequences. Four variants were characterized. All displayed wild-...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/13.22.8053
更新日期:1985-11-25 00:00:00
abstract::A new integrated image analysis package with quantitative quality control schemes is described for cDNA microarray technology. The package employs an iterative algorithm that utilizes both intensity characteristics and spatial information of the spots on a microarray image for signal-background segmentation and define...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/29.15.e75
更新日期:2001-08-01 00:00:00
abstract::Oligodeoxyribonucleotides containing N4-methoxycytosine (mo4C), N4-methoxy-5-methylcytosine (mo4m5C) and other base-analogues were synthesised and used to compare the stabilities of duplexes containing mo4C.A and mo4C.G base pairs with those containing normal and mismatch pairs. The Tm values and other thermodynamic p...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/15.20.8167
更新日期:1987-10-26 00:00:00
abstract::Existence of some extra-genetic (epigenetic) codes has been postulated since the discovery of the primary genetic code. Evident effects of histone post-translational modifications or DNA methylation over the efficiency and the regulation of DNA processes are supporting this postulation. EMdeCODE is an original algorit...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks1214
更新日期:2013-02-01 00:00:00
abstract::Optogenetic control of CRISPR-Cas9 systems has significantly improved our ability to perform genome perturbations in living cells with high precision in time and space. As new Cas orthologues with advantageous properties are rapidly being discovered and engineered, the need for straightforward strategies to control th...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa1198
更新日期:2020-12-16 00:00:00
abstract::Giant viruses have extraordinarily large dsDNA genomes, and exceptionally, they encode various components of the translation apparatus, including tRNAs, aminoacyl-tRNA synthetases and translation factors. Here, we focused on the elongation factor 1 (EF1) family of viral translational GTPases (trGTPases), using computa...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz296
更新日期:2019-06-20 00:00:00
abstract::The promoter region of the mouse CCAAT-Enhancer Binding Protein (C/EBP alpha) gene is capable of directing high levels of expression of reporter constructs in various cell lines, albeit even in cells that do not express their endogenous C/EBP alpha gene. To understand the molecular mechanisms underlying this ubiquitou...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/21.8.1735
更新日期:1993-04-25 00:00:00
abstract::HBV genotypes differ in pathogenicity. In addition, genotype-specific differences in the regulation of transcription and virus replication exist in HBV, but the underlying mechanisms are unknown. Here, we show the presence of a G-quadruplex motif in the promoter of the preS2/S gene; this G-quadruplex is highly conserv...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx823
更新日期:2017-11-02 00:00:00
abstract::High-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP, also called CLIP-Seq) has been used to map global RNA-protein interactions. However, a critical caveat of HITS-CLIP results is that they contain non-linear background noise-different extent of non-specific interactions caused b...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky917
更新日期:2018-11-30 00:00:00
abstract::A putative role for mammalian polynucleotide kinases that possess both 5'-phosphotransferase and 3'-phosphatase activity is the restoration of DNA strand breaks with 5'-hydroxyl termini or 3'-phosphate termini, or both, to a form that supports the subsequent action of DNA repair polymerases and DNA ligases, i.e. 5'-ph...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/26.19.4395
更新日期:1998-10-01 00:00:00
abstract::The RESID Database is a comprehensive collection of annotations and structures for protein post-translational modifications including N-terminal, C-terminal and peptide chain cross-link modifications. The RESID Database includes systematic and frequently observed alternate names, Chemical Abstracts Service registry nu...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/29.1.199
更新日期:2001-01-01 00:00:00
abstract::Cdc13 is an essential protein from Saccharomyces cerevisiae that caps telomeres by protecting the C-rich telomeric DNA strand from degradation and facilitates telomeric DNA replication by telomerase. In vitro, Cdc13 binds TG-rich single-stranded telomeric DNA with high affinity and specificity. A previously identified...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkf554
更新日期:2002-10-01 00:00:00
abstract::p53 as an effector of nucleolar stress is well defined, but p53 independent mechanisms are largely unknown. Like p53, the NF-κB transcription factor plays a critical role in maintaining cellular homeostasis under stress. Many stresses that stimulate NF-κB also disrupt nucleoli. However, the link between nucleolar func...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky455
更新日期:2018-07-06 00:00:00
abstract::The complete nucleotide sequence of the mitochondrial DNA of the amphioxus Branchiostoma lanceolatum has been determined. This mitochondrial genome is small (15 076 bp) because of the short size of the two rRNA genes and the tRNA genes. In addition, this genome contains a very short non-coding region (57 bp) with no s...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/26.13.3279
更新日期:1998-07-01 00:00:00
abstract::NONO, SFPQ and PSPC1 make up a family of proteins with diverse roles in transcription, RNA processing and DNA double-strand break (DSB) repair. To understand long-term effects of loss of NONO, we characterized murine embryonic fibroblasts (MEFs) from knockout mice. In the absence of genotoxic stress, wild-type and mut...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku650
更新日期:2014-09-01 00:00:00
abstract::Altering zinc bioavailability to bacterial pathogens is a key component of host innate immunity. Thus, the ability to sense and adapt to the alterations in zinc concentrations is critical for bacterial survival and pathogenesis. To understand the adaptive responses of group A Streptococcus (GAS) to zinc limitation and...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku1304
更新日期:2015-01-01 00:00:00
abstract::The mutation patterns at Cas9 targeted sites contain unique information regarding the nuclease activity and repair mechanisms in mammalian cells. However, analytical framework for extracting such information are lacking. Here, we present a novel computational platform called Rational InDel Meta-Analysis (RIMA) that en...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky653
更新日期:2018-09-19 00:00:00
abstract::Structured RNA molecules form complex 3D architectures stabilized by multiple interactions involving the nucleotide base, sugar and phosphate moieties. A significant percentage of the bases in structured RNA molecules in the Protein Data Bank (PDB) hydrogen-bond with phosphates of other nucleotides. By extracting and ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp468
更新日期:2009-08-01 00:00:00
abstract::The small nucleolar RNA U3 is essential for viability in yeast. We have previously shown that U3 can be cross-linked in vivo to the pre-rRNA in the 5' external transcribed spacer (ETS), at +470. This ETS region contains 10 nucleotides of perfect complementarity to U3. In a genetic background where the mutated rDNA is ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.20.4057
更新日期:1994-10-11 00:00:00
abstract::Proteins interacting with pre-mRNAs during early stages of spliceosome formation in a HeLa nuclear extract were investigated by photochemical RNA-protein crosslinking. The level of protein crosslinking to a beta-globin pre-mRNA was positively correlated with the presence of an intron. Proteins of 110,000, 59,000 and 3...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/18.11.3307
更新日期:1990-06-11 00:00:00