通过三重态各向异性衰减测量的DNA分子运动。
Molecular motion of DNA as measured by triplet anisotropy decay.
作者信息
Hogan M, Wang J, Austin R H, Monitto C L, Hershkowitz S
出版信息
Proc Natl Acad Sci U S A. 1982 Jun;79(11):3518-22. doi: 10.1073/pnas.79.11.3518.
Abstract
We have used triplet anisotropy decay techniques to measure the internal flexibility and overall rotational motion of DNA, covering a time range from 15 ns to 200 mus. Nearly monodisperse DNA fragments 65--600 base pairs long were studied by using the intercalating dye methylene blue as a triplet probe. We found that the slow end-over-end tumbling of short DNA fragments (less than or equal to 165 base pairs) is as predicted for a rigid rod. As expected, a longer DNA fragment (600 base pairs) experiences slow segmental motion of its helix axis. We found that, at the earliest times, anisotropy decays more rapidly than expected for a rigid rod, suggesting that, when bound, methylene blue monitors fast internal motion of the helix. Since the rod-like end-over-end tumbling of short fragments rules out fast bending motions, we conclude that the fast components of DNA anisotropy decay are due to twisting motion of the helix, occurring with a time constant near 50 ns.
摘要
我们使用三线态各向异性衰减技术来测量DNA的内部柔韧性和整体旋转运动，时间范围从15纳秒到200微秒。通过使用嵌入染料亚甲蓝作为三线态探针，研究了长度为65 - 600个碱基对的几乎单分散的DNA片段。我们发现，短DNA片段（小于或等于165个碱基对）的缓慢的端对端翻滚正如刚性棒所预测的那样。正如预期的那样，较长的DNA片段（600个碱基对）其螺旋轴会经历缓慢的片段运动。我们发现，在最早的时间，各向异性衰减比刚性棒预期的要快，这表明，结合时，亚甲蓝监测到螺旋的快速内部运动。由于短片段的棒状端对端翻滚排除了快速弯曲运动，我们得出结论，DNA各向异性衰减的快速成分是由于螺旋的扭曲运动，其时间常数接近50纳秒。
相似文献
1
Molecular motion of DNA as measured by triplet anisotropy decay.通过三重态各向异性衰减测量的DNA分子运动。
Proc Natl Acad Sci U S A. 1982 Jun;79(11):3518-22. doi: 10.1073/pnas.79.11.3518.
2
Triplet anisotropy decay measurements of DNA internal motion.DNA内部运动的三重态各向异性衰减测量
Ciba Found Symp. 1983;93:226-45. doi: 10.1002/9780470720752.ch13.
3
Microsecond rotational motions of eosin-labeled myosin measured by time-resolved anisotropy of absorption and phosphorescence.通过吸收和磷光的时间分辨各向异性测量嗜酸性粒细胞标记肌球蛋白的微秒级旋转运动。
J Mol Biol. 1984 Oct 15;179(1):55-81. doi: 10.1016/0022-2836(84)90306-1.
4
Rotational diffusion of Escherichia coli RNA polymerase free and bound to deoxyribonucleic acid in nonspecific complexes.游离的以及在非特异性复合物中与脱氧核糖核酸结合的大肠杆菌RNA聚合酶的旋转扩散。
Biochemistry. 1983 Jun 21;22(13):3082-90. doi: 10.1021/bi00282a010.
5
DNA motions in the nucleosome core particle.核小体核心颗粒中的DNA运动。
Proc Natl Acad Sci U S A. 1982 Oct;79(19):5896-900. doi: 10.1073/pnas.79.19.5896.
6
Dynamic bending rigidity of a 200-bp DNA in 4 mM ionic strength: a transient polarization grating study.4 mM离子强度下200碱基对DNA的动态弯曲刚度：瞬态偏振光栅研究
Biophys J. 2000 Mar;78(3):1498-518. doi: 10.1016/S0006-3495(00)76703-8.
7
Anisotropic overall and internal motions of short DNA fragments.短DNA片段的各向异性整体运动和内部运动。
Nucleic Acids Res. 1986 May 12;14(9):3945-56. doi: 10.1093/nar/14.9.3945.
8
Fluorescence anisotropy decay of ethidium bound to nucleosome core particles. 2. The torsional motion of the DNA is highly constrained and sensitive to pH.与核小体核心颗粒结合的溴化乙锭的荧光各向异性衰减。2. DNA的扭转运动受到高度限制且对pH敏感。
Biochemistry. 1991 May 28;30(21):5304-13. doi: 10.1021/bi00235a025.
9
Rotational motion of cytochrome c derivatives bound to membranes measured by fluorescence and phosphorescence anisotropy.通过荧光和磷光各向异性测量与膜结合的细胞色素c衍生物的旋转运动。
Eur J Biochem. 1982 Aug;126(1):1-9. doi: 10.1111/j.1432-1033.1982.tb06737.x.
10
The slow folding reaction of barstar: the core tryptophan region attains tight packing before substantial secondary and tertiary structure formation and final compaction of the polypeptide chain.巴氏杆菌抑制因子的缓慢折叠反应：在多肽链形成大量二级和三级结构并最终压实之前，核心色氨酸区域就已实现紧密堆积。
J Mol Biol. 2000 Sep 15;302(2):479-95. doi: 10.1006/jmbi.2000.4060.
引用本文的文献
1
Sequential Two-Photon Delayed Fluorescence Anisotropy for Macromolecular Size Determination.顺序双光子延迟荧光各向异性用于大分子尺寸测定。
J Phys Chem B. 2023 May 4;127(17):3861-3869. doi: 10.1021/acs.jpcb.3c01236. Epub 2023 Apr 25.
2
On the absence of intrahelical DNA dynamics on the μs to ms timescale.关于在微秒至毫秒时间尺度上螺旋内DNA动力学的缺失。
Nat Commun. 2014 Oct 29;5:5152. doi: 10.1038/ncomms6152.
3
Convergence and reproducibility in molecular dynamics simulations of the DNA duplex d(GCACGAACGAACGAACGC).DNA双链d(GCACGAACGAACGAACGC)分子动力学模拟中的收敛性和可重复性
Biochim Biophys Acta. 2015 May;1850(5):1041-1058. doi: 10.1016/j.bbagen.2014.09.007. Epub 2014 Sep 16.
4
Probing complexes with single fluorophores: factors contributing to dispersion of FRET in DNA/RNA duplexes.用单个荧光团探测复合物：DNA/RNA双链体中FRET分散的影响因素
Eur Biophys J. 2009 Apr;38(4):395-405. doi: 10.1007/s00249-008-0383-z. Epub 2008 Nov 18.
5
Dynamic bending rigidity of a 200-bp DNA in 4 mM ionic strength: a transient polarization grating study.4 mM离子强度下200碱基对DNA的动态弯曲刚度：瞬态偏振光栅研究
Biophys J. 2000 Mar;78(3):1498-518. doi: 10.1016/S0006-3495(00)76703-8.
6
DNA motions in the nucleosome core particle.核小体核心颗粒中的DNA运动。
Proc Natl Acad Sci U S A. 1982 Oct;79(19):5896-900. doi: 10.1073/pnas.79.19.5896.
7
Fluorescence recovery spectroscopy as a probe of slow rotational motions.荧光恢复光谱法作为慢旋转运动的一种探测手段。
Biophys J. 1984 Dec;46(6):795-803. doi: 10.1016/S0006-3495(84)84078-3.
8
Investigation of DNA dynamics and drug-DNA interaction by steady state fluorescence anisotropy.通过稳态荧光各向异性研究DNA动力学和药物与DNA的相互作用。
Nucleic Acids Res. 1985 Apr 11;13(7):2603-15. doi: 10.1093/nar/13.7.2603.
9
Anisotropic overall and internal motions of short DNA fragments.短DNA片段的各向异性整体运动和内部运动。
Nucleic Acids Res. 1986 May 12;14(9):3945-56. doi: 10.1093/nar/14.9.3945.
10
Perturbations to the intersystem crossing of proflavin upon binding to DNA and poly d(A-IU) from triplet-delayed emission spectroscopy.通过三重态延迟发射光谱研究黄素与DNA及聚d(A - IU)结合时对其系间窜越的扰动。
Biophys J. 1988 Oct;54(4):627-35. doi: 10.1016/S0006-3495(88)82998-9.
本文引用的文献
1
Crystal structure analysis of a complete turn of B-DNA.B型DNA完整一圈的晶体结构分析。
Nature. 1980 Oct 23;287(5784):755-8. doi: 10.1038/287755a0.
2
Effect of librational motion on fluorescence depolarization and nuclear magnetic resonance relaxation in macromolecules and membranes.大分子和膜中振动运动对荧光去极化和核磁共振弛豫的影响。
Biophys J. 1980 Jun;30(3):489-506. doi: 10.1016/S0006-3495(80)85109-5.
3
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.
4
Effect of ethidium bromide on deoxyribonucleic acid internal motions.溴化乙锭对脱氧核糖核酸内部运动的影响。
Biochemistry. 1980 May 13;19(10):2079-85. doi: 10.1021/bi00551a012.
5
Rotational diffusion of biological macromolecules by time-resolved delayed luminescence (phosphorescence, fluorescence) anisotropy.通过时间分辨延迟发光（磷光、荧光）各向异性研究生物大分子的旋转扩散。
Ann N Y Acad Sci. 1981;366:176-96. doi: 10.1111/j.1749-6632.1981.tb20753.x.
6
Analysis of double-helix motions with spin-labeled probes: binding geometry and the limit of torsional elasticity.使用自旋标记探针分析双螺旋运动：结合几何结构与扭转弹性极限
J Mol Biol. 1980 May 5;139(1):19-44. doi: 10.1016/0022-2836(80)90113-8.
7
Direct observation of the torsional dynamics of DNA and RNA by picosecond spectroscopy.通过皮秒光谱法直接观察DNA和RNA的扭转动力学。
Proc Natl Acad Sci U S A. 1980 Oct;77(10):5593-7. doi: 10.1073/pnas.77.10.5593.
8
A fluorescent complex between ethidium bromide and nucleic acids. Physical-chemical characterization.溴化乙锭与核酸之间的荧光复合物。物理化学特性
J Mol Biol. 1967 Jul 14;27(1):87-106. doi: 10.1016/0022-2836(67)90353-1.
9
Decay of fluorescence emission anisotropy of the ethidium bromide-DNA complex. Evidence for an internal motion in DNA.溴化乙锭 - DNA复合物荧光发射各向异性的衰减。DNA内部运动的证据。
Proc Natl Acad Sci U S A. 1970 Feb;65(2):417-21. doi: 10.1073/pnas.65.2.417.
10
Dynamics of fluorescence polarization in macromolecules.大分子中荧光偏振的动力学
Proc Natl Acad Sci U S A. 1972 Jun;69(6):1392-3. doi: 10.1073/pnas.69.6.1392.
Zotero 插件