Abstract:
:We report that greA expression is driven by two strong, overlapping P1 and P2 promoters. The P1 promoter is sigma(70)-dependent and P2 is sigma(E)-dependent. Two-thirds of transcripts terminate within the leader region and the remaining third comprises greA mRNA. Termination efficiency seems to be unaffected by growth phase. Two collections of small 40-50 (initiating from P2) and 50-60 nt (from P1) RNA chains, termed GraL, are demonstrable in vivo and in vitro. We document that GraL arrays arise from an intrinsic terminator with an 11 bp stem followed by an AU(7)GCU(2) sequence. Atypical chain termination occurs at multiple sites; the 3'-ends differ by 1 nt over a range of 10 nt. Transcripts observed are shown to be insensitive to Gre factors and physically released from RNAP-DNA complexes. The abundance of individual chains within each cluster displays a characteristic pattern, which can be differentially altered by oligonucleotide probes. Multiple termination sites are particularly sensitive to changes at the bottom of the stem. Evolutionarily conserved GraL stem structures and fitness assays suggest a biological function for the RNA clusters themselves. Although GraL overexpression induces >/=3-fold transcriptional changes of over 100 genes, a direct target remains elusive.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Potrykus K,Murphy H,Chen X,Epstein JA,Cashel Mdoi
10.1093/nar/gkp1150subject
Has Abstractpub_date
2010-03-01 00:00:00pages
1636-51issue
5eissn
0305-1048issn
1362-4962pii
gkp1150journal_volume
38pub_type
杂志文章abstract::Slime mold, plant and insect dihydropyrimidine amidohydrolases (DHPases, EC 3.5.2.2), which catalyze the second step of pyrimidine and several anti-cancer drug degradations, were cloned and shown to functionally replace a defective DHPase enzyme in the yeast Saccharomyces kluyveri. The yeast and slime mold DHPases wer...
journal_title:Nucleic acids research
pub_type: 杂志文章
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abstract::RNase J is a conserved ribonuclease that belongs to the β-CASP family of nucleases. It possesses both endo- and exo-ribonuclease activities, which play a key role in pre-rRNA maturation and mRNA decay. Here we report high-resolution crystal structures of Deinococcus radiodurans RNase J complexed with RNA or uridine 5'...
journal_title:Nucleic acids research
pub_type: 杂志文章
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journal_title:Nucleic acids research
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2006-04-28 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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journal_title:Nucleic acids research
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:1986-04-11 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp643
更新日期:2009-09-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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journal_title:Nucleic acids research
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv1212
更新日期:2015-12-15 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2007-01-01 00:00:00
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journal_title:Nucleic acids research
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更新日期:2012-12-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2019-01-08 00:00:00
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pub_type: 杂志文章,评审
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks1111
更新日期:2013-01-01 00:00:00
abstract::We have developed a novel method for estimating the parameters of hidden Markov models for gene finding in newly sequenced species. Our approach does not rely on curated training data sets, but instead uses extrinsic evidence (including paired-end ditags that have not been used in gene finding previously) and iterativ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp052
更新日期:2009-04-01 00:00:00
abstract::Simian virus 40 (SV40) nucleoprotein complexes were extracted from nuclei of infected monkey cells and fractionated on neutral sucrose density gradients. Complexes which contained replicating SV40 DNA (95S) separated well from those containing closed circular supercoiled viral DNA (75S). DNA polymerase activity was as...
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abstract::Chromatin organization and epigenetic markers influence splicing, though the magnitudes of these effects and the mechanisms are largely unknown. Here, we demonstrate that linker histone H1.5 influences mRNA splicing. We observed that linker histone H1.5 binds DNA over splice sites of short exons in human lung fibrobla...
journal_title:Nucleic acids research
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journal_title:Nucleic acids research
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:1984-01-11 00:00:00
abstract::Besides the nicking-closing (topoisomerase I) activity, an ATP-dependent DNA topoisomerase is present in rat liver nuclei. The enzyme, partially purified, is able to catenate in vitro closed DNA circles in a magnesium-dependent, ATP-dependent, histone H1-dependent reaction, and to decatenate in vitro kinetoplast DNA n...
journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:1983-02-25 00:00:00
abstract::Arginyl-tRNA synthetase (ArgRS) catalyses AMP- and PPi-independent deacylation of Arg-tRNAArg in the presence of cysteine. A dipeptide, Arg-Cys, is a product of this deacylation reaction. Similar reaction with homocysteine yields Arg-Hcy. Arginine is a noncompetitive inhibitor of the cysteine-dependent deacylation whi...
journal_title:Nucleic acids research
pub_type: 杂志文章
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abstract::The Protein Data Bank in Europe (PDBe, pdbe.org) is actively engaged in the deposition, annotation, remediation, enrichment and dissemination of macromolecular structure data. This paper describes new developments and improvements at PDBe addressing three challenging areas: data enrichment, data dissemination and func...
journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2018-01-04 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:1998-09-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2010-04-01 00:00:00
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journal_title:Nucleic acids research
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更新日期:2021-01-08 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2005-07-01 00:00:00