DNA-ligand interactions studied through the chiral nature of DNA
通过 DNA 的手性性质研究 DNA-配体相互作用
基本信息
- 批准号:09440225
- 负责人:
- 金额:$ 4.61万
- 依托单位:
- 依托单位国家:日本
- 项目类别:Grant-in-Aid for Scientific Research (B).
- 财政年份:1997
- 资助国家:日本
- 起止时间:1997 至 2000
- 项目状态:已结题
- 来源:
- 关键词:
项目摘要
DAN base-sequence recognition by DNA ligands is one of the most fundamental and important issues in every life forms. To understand DNA-ligand interactions at the molecular level, we have been working on low molecular-weight metal complexes, especially achiral metal porphyrin complexes as they exhibit substantial induced CD in the Soret band region. We have previously revealed that induced CD spectra reflect various binding modes such as major groove binding, minor groove binding and intercalation between base-pairs of DNA.To obtain quantitative information on the binding modes, we have adopted two independent methods. One is based on the genetic algorithm combined with the steepest descent technique, and the other is based on more empirical approach by normalizing induced CD spectra recorded at different r (r=[porphyrin]/[DNA]) values by [DNA]. The former involved substantial computer programming using c-language. Without adopting the usual Lorentzian or Gaussian curves, the spectra were simulated with general forms with t-distribution against light energy. The number of components was determined by the degree of reduction of errors. Generally speaking, simulation was successful and we are currently writing a new program which calculates site sizes and binding constants based on the simulated CD curves. The other method involved only three components at maximum. Despite the small numbers of components, the simulation was good.To extend the process to other systems especially to DNA-binding proteins, we have synthesized conjugated with a peptide or amino acid residue.
DNA配体对DAN碱基序列的识别是生命体中最基本、最重要的问题之一。为了在分子水平上理解DNA-配体相互作用,我们一直在研究低分子量金属配合物,特别是非手性金属卟啉配合物,因为它们在Soret带区域表现出大量的诱导CD。我们已经发现诱导CD谱反映了DNA的大沟结合、小沟结合和碱基间插入等多种结合模式,为了获得这些结合模式的定量信息,我们采用了两种独立的方法。一种是基于遗传算法结合最速下降技术,另一种是基于更经验的方法,通过归一化诱导CD光谱记录在不同的r(r=[卟啉]/[DNA])值由[DNA]。前者涉及大量使用C语言的计算机编程。在不采用通常的洛伦兹或高斯曲线的情况下,用t分布对光能的一般形式来模拟光谱。分量的数目由误差减少的程度决定。一般来说,模拟是成功的,我们目前正在编写一个新的程序,计算网站的大小和结合常数的基础上模拟CD曲线。另一种方法最多只涉及三个组分。为了将该过程扩展到其他系统,特别是DNA结合蛋白,我们合成了与肽或氨基酸残基缀合的蛋白。
项目成果
期刊论文数量(88)
专著数量(0)
科研奖励数量(0)
会议论文数量(0)
专利数量(0)
R.Kuroda and T.Honma: "CD Spectra of Solid-State Samples"Chirality. 12. 269-277 (2000)
R.Kuroda 和 T.Honma:“固态样品的 CD 光谱”手性。
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- 影响因子:0
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R.Kuroda and Y.Saito: "Circular Dichroism of Inorganic Complexes : Interpretation and Applications"Chapter 20 Edited by N.Berova, K.Nakanishi and R.W.Woody. 563-599 (2000)
R.Kuroda 和 Y.Saito:“无机配合物的圆二色性:解释和应用”第 20 章,N.Berova、K.Nakanishi 和 R.W.Woody 编辑。
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- 影响因子:0
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M.Benedetti: "Induced CD on the d-d Transitions of Square Planar MS_4 Chromohoric Groups of Ni(II) Complexes with Enantiomeric Dithiophosphate Ligands"Enantiomer. 4. 57-61 (1999)
M.Benedetti:“在带有对映体二硫代磷酸盐配体的 Ni(II) 配合物的方形平面 MS_4 发色基团的 d-d 跃迁上诱导 CD”对映体。
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- 影响因子:0
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A.Saito: "Design and Synthesis of Modified Nucleosides for Triple Helix-mediated Adenine-Thymine Base Pair Recognition." Nucl.Acids Symp.Ser. 39. 27-28 (1998)
A.Saito:“用于三螺旋介导的腺嘌呤-胸腺嘧啶碱基对识别的修饰核苷的设计和合成。”
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T.Sugiyama, A.Kittaka, H.Takayama, M.Tomioka, Y.Ida and R.Kuroda: "Interaction of peptides derived from RecA with single stranded oligonucleotides containing 5-formyl-2'-deoxyuridine."Nucleic Acids Symp.Ser.. 44. 41-42 (2000)
T.Sugiyama、A.Kittaka、H.Takayama、M.Tomioka、Y.Ida 和 R.Kuroda:“源自 RecA 的肽与含有 5-甲酰基-2-脱氧尿苷的单链寡核苷酸的相互作用。”核酸症状。
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KURODA Reiko其他文献
KURODA Reiko的其他文献
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{{ truncateString('KURODA Reiko', 18)}}的其他基金
Social jetlag, a misalignment of biological and social time, and health effect assosiation in Japanese working population
社会时差、生物时间和社会时间的错位以及日本工作人群的健康影响关联
- 批准号:
25870191 - 财政年份:2013
- 资助金额:
$ 4.61万 - 项目类别:
Grant-in-Aid for Young Scientists (B)
Towards the creation of transgenic snails for the identification of the handedness determining gene
致力于创建转基因蜗牛以鉴定惯用手决定基因
- 批准号:
24657149 - 财政年份:2012
- 资助金额:
$ 4.61万 - 项目类别:
Grant-in-Aid for Challenging Exploratory Research
Chasing chirality recognition reaction in the solid-state
追逐固态手性识别反应
- 批准号:
10554045 - 财政年份:1998
- 资助金额:
$ 4.61万 - 项目类别:
Grant-in-Aid for Scientific Research (B).
Novel metal complex oligomer which forms triple helix with DNA
与DNA形成三螺旋的新型金属复合低聚物
- 批准号:
06453046 - 财政年份:1994
- 资助金额:
$ 4.61万 - 项目类别:
Grant-in-Aid for General Scientific Research (B)
The chirality of metal complexes recognized by DNA and its significance towards biological activities
DNA识别的金属配合物的手性及其对生物活性的意义
- 批准号:
03403009 - 财政年份:1991
- 资助金额:
$ 4.61万 - 项目类别:
Grant-in-Aid for General Scientific Research (A)
Multi-Functional Metal Complexes with DNA Base-Sequence Selectivity
具有 DNA 碱基序列选择性的多功能金属配合物
- 批准号:
01470047 - 财政年份:1989
- 资助金额:
$ 4.61万 - 项目类别:
Grant-in-Aid for General Scientific Research (B)
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量化单分子 DNA-配体相互作用
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1817712 - 财政年份:2018
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Conformational Stability & Dynamics of G-Quadruplexed DNA & Ligand Interactions
构象稳定性
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7558771 - 财政年份:
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$ 4.61万 - 项目类别:
Conformational Stability & Dynamics of G-Quadruplexed DNA & Ligand Interactions
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- 批准号:
7778905 - 财政年份:
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$ 4.61万 - 项目类别:
Conformational Stability & Dynamics of G-Quadruplexed DNA & Ligand Interactions
构象稳定性
- 批准号:
7579900 - 财政年份:
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