DNA弯曲影响超螺旋DNA的内部运动。
DNA curvature influences the internal motions of supercoiled DNA.
作者信息
Kremer W, Klenin K, Diekmann S, Langowski J
机构信息
EMBL, Grenoble Outstation, France.
出版信息
EMBO J. 1993 Nov;12(11):4407-12. doi: 10.1002/j.1460-2075.1993.tb06125.x.
Abstract
We present evidence that short curved DNA segments can act as mediators for the ordering of large domains in superhelical DNA. Using a non-invasive solution method (dynamic light scattering), we investigated the effect of permanently curved inserts on the solution structure and on the internal motions of superhelical plasmid DNA. We find that the dynamics of superhelical DNA are strongly influenced by sequence- or protein-induced bending: in superhelical plasmids containing curved inserts the amplitude of the internal motion is lower than that of non-curved controls. Furthermore, the relative arrangement of curved sequences in the plasmids can influence the overall shape of the superhelical DNA. On linearized forms of the plasmids, these effects are not observed.
摘要
我们提供的证据表明，短的弯曲DNA片段可以作为超螺旋DNA中大片段有序排列的介质。使用一种非侵入性的溶液方法（动态光散射），我们研究了永久性弯曲插入片段对溶液结构以及超螺旋质粒DNA内部运动的影响。我们发现，超螺旋DNA的动力学受到序列或蛋白质诱导弯曲的强烈影响：在含有弯曲插入片段的超螺旋质粒中，内部运动的幅度低于非弯曲对照。此外，质粒中弯曲序列的相对排列会影响超螺旋DNA的整体形状。在质粒的线性化形式上，未观察到这些效应。
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本文引用的文献
1
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EMBO J. 1993 Jun;12(6):2483-94. doi: 10.1002/j.1460-2075.1993.tb05903.x.
2
Torison dynamics and depolarization of fluorescence of linear macromolecules. II. Fluorescence polarization anisotropy measurements on a clean viral phi 29 DNA.线性大分子的扭转动力学与荧光去极化。II. 清洁的φ29病毒DNA的荧光偏振各向异性测量
Biophys Chem. 1980 Oct;12(2):177-88. doi: 10.1016/0301-4622(80)80050-0.
3
Flipping of cloned d(pCpG)n.d(pCpG)n DNA sequences from right- to left-handed helical structure by salt, Co(III), or negative supercoiling.通过盐、钴（III）或负超螺旋使克隆的d(pCpG)n.d(pCpG)n DNA序列从右手螺旋结构转变为左手螺旋结构。
Proc Natl Acad Sci U S A. 1982 Aug;79(15):4560-4. doi: 10.1073/pnas.79.15.4560.
4
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