Abstract:
:The extrusion kinetics of two cruciforms derived from unrelated DNA sequences differ markedly. Kinetic barriers exist for both reactions, necessitating elevated temperatures before extrusion proceeds at measureable speeds, but the dependence upon temperature and ionic strength is quite different for the two sequences. One, the ColE1 inverted repeat, exhibits a remarkably great temperature dependence of reaction rate and is suppressed by moderate amounts of NaCl or MgCl2. In contrast, the other, a synthetic inverted repeat present in pIRbke8, shows more modest temperature dependence and has a requirement for the presence of salt, with optimal concentrations being 50 mM NaCl or 100 microM MgCl2. Under optimal conditions, cruciform extrusion rates are fast (t1/2 less than 60m) at 37 degrees C for both sequences at native superhelix densities. In 50 mM NaCl the pIRbke8 inverted repeat is characterised by an Arrhenius activation energy of 42.4 +/- 3.2 kcal mole -1. The differences in kinetic properties between the two sequences indicate that DNA base sequence is itself an important factor in determining cruciform kinetics, and possibly even in the selection of the mechanistic pathway.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Lilley DMdoi
10.1093/nar/13.5.1443subject
Has Abstractpub_date
1985-03-11 00:00:00pages
1443-65issue
5eissn
0305-1048issn
1362-4962journal_volume
13pub_type
杂志文章abstract::Locked nucleic acid (LNA) is a chemically modified nucleic acid with its sugar ring locked in an RNA-like (C3'-endo) conformation. LNAs show extraordinary thermal stabilities when hybridized with DNA, RNA or LNA itself. We performed molecular dynamics simulations on five isosequential duplexes (LNA-DNA, LNA-LNA, LNA-R...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm1182
更新日期:2008-03-01 00:00:00
abstract::T-region transfer from wild-type Agrobacterium strains is thought to be an orientated process, starting at the right border repeat and terminating at the left border repeat of the T-region. Here we demonstrate that a right border repeat in the inverted orientation relative to the onc-genes can also mediate transfer of...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/16.21.10225
更新日期:1988-11-11 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv1280
更新日期:2016-01-08 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gki430
更新日期:2005-07-01 00:00:00
abstract::Increased sequencing of microbial genomes has revealed that prevailing prokaryotic species assignments can be inconsistent with whole genome information for a significant number of species. The long-standing need for a systematic and scalable species assignment technique can be met by the genome-wide Average Nucleotid...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv657
更新日期:2015-08-18 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa702
更新日期:2020-09-25 00:00:00
abstract::RNase D was recently reported as a new enzymatic activity associated with HIV-1 reverse transcriptase (RT), cleaving RNA at two positions within the double-stranded region of the tRNA primer-viral RNA template complex (Ben-Artzi et al., Proc. Natl. Acad. Sci. USA 89 (1992) 927-931). This would make RNase D a fourth di...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/20.21.5819
更新日期:1992-11-11 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx1095
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
doi:10.1093/nar/gkl819
更新日期:2006-01-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/2.2.179
更新日期:1975-02-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg138
更新日期:2003-01-15 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.4.893
更新日期:1991-02-25 00:00:00
abstract::The GenBank(R) sequence database (http://www.ncbi.nlm.nih.gov/) incorporates DNA sequences from all available public sources, primarily through the direct submission of sequence data from individual laboratories and from large-scale sequencing projects. Most submitters use the BankIt (WWW) or Sequin programs to send t...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/26.1.1
更新日期:1998-01-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/1.10.1287
更新日期:1974-10-01 00:00:00
abstract::DNA polymerase (Pol) beta null mouse embryonic fibroblasts provide a useful cell system to investigate the effects of alterations in base excision repair (BER) on genome stability. These cells are characterized by hypersensitivity to the cytotoxic effects of methyl methanesulfonate (MMS) and by decreased repair of the...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gki168
更新日期:2005-01-12 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.21.4489
更新日期:1994-10-25 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/12.1part1.175
更新日期:1984-01-11 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.18.5031
更新日期:1991-09-25 00:00:00
abstract::SNiPlay is a web-based tool for detection, management and analysis of genetic variants including both single nucleotide polymorphisms (SNPs) and InDels. Version 3 now extends functionalities in order to easily manage and exploit SNPs derived from next generation sequencing technologies, such as GBS (genotyping by sequ...
journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2015-07-01 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:2015-10-15 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/6.6.2307
更新日期:1979-01-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/5.6.1801
更新日期:1978-06-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt051
更新日期:2013-03-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkn1013
更新日期:2009-03-01 00:00:00
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
pub_type: 杂志文章
doi:10.1093/nar/gkz338
更新日期:2019-07-09 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/5.7.2513
更新日期:1978-07-01 00:00:00
abstract::The pathogen-host interactions database (PHI-base) is available at www.phi-base.org PHI-base contains expertly curated molecular and biological information on genes proven to affect the outcome of pathogen-host interactions reported in peer reviewed research articles. In addition, literature that indicates specific ge...
journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2017-01-04 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:2018-01-04 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/18.4.779
更新日期:1990-02-25 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr750
更新日期:2012-01-01 00:00:00