叶酸与鲱鱼精DNA作用机制的光谱研究

采用荧光光谱和吸收光谱法研究了叶酸(FA)与鲱鱼精DNA(DNA)的相互作用。研究了DNA热变性、离子强度、阴离子猝灭剂KI及金属离子对FA-DNA体系的影响,分析了FA与DNA的相互作用模式,获得了不同温度下的结合常数、结合位点数及热力学参数。结果表明,DNA对FA的荧光有明显的猝灭作用,作用过程为静态猝灭,FA通过沟槽模式和静电作用力与DNA结合。     

利用(+)ESI-MS-MS方法分析研究脱氧四核苷酸的裂解特征

细胞中存在很多金属离子参与DNA及其组成部分的重要的生物过程.质谱作为1种重要的分析方法,能用以考察这些金属离子和DNA在分子水平的相互作用,确定金属离子和生物分子的结合位点,并检测金属离子对于生物分子的性质和反应性的影响.本研究利用(+)ESI-MS-MS考察了3个四碱基DNA分子d(TGAC)、d(GTAC)、d(ATAT)的[M+Na]+、[M+K]+的质谱行为,这些金属离子与同1分子的[M+H]+的裂解具有明显的差异;推测为不同的离子在DNA上的加合位置不同,导致质谱行为的差异.     

Ag(Ⅰ)、Au(Ⅲ)、Pt(Ⅳ)离子与DNA相互作用的光谱研究

本文用中药小檗碱作为探针分子,在0.01mol·L^-1醋酸-醋酸钠缓冲体系中,用荧光和紫外-可见吸收光谱研究了贵金属离子Ag(Ⅰ)、Au(Ⅲ)、Pt(Ⅳ)与DNA的相互作用。在三种贵金属离子中,Au(Ⅲ)、Pt(Ⅳ)离子对小檗碱-DNA体系均具有明显的荧光猝灭作用,而Ag(Ⅰ)离子对该体系有强烈的荧光敏化作用。分别求出了三种贵金属离子与DNA的结合常数。三种贵金属离子与DNA结合能力的强弱顺序依次为:Au(Ⅲ) >Ag(Ⅰ) >Pt(Ⅳ)。探讨了三种贵金属离子与DNA的作用机理及导致结合力不同的原因。     

金属蛋白研究中几个值得注意的动向

本文叙述了金属蛋白和金属酶研究中近年来几个值得注意的发展动向，即与金属离子相关的疾病（特别是神经退行性疾病）、金属离子在蛋白质的折叠、聚集和装配中的作用，金属伴侣分子、金属蛋白的设计和构建、金属蛋白与DNA相互作用。     

功能核酸生物传感器检测金属离子的研究进展

功能核酸是具有特定结构和功能的天然或人工核酸序列。一些金属离子是人体必需的微量元素,但过量的金属离子会对人体健康带来危害。功能核酸具有易于修饰、价格低廉、稳定性高、特异性强等优点,被广泛应用于金属离子的检测。本文详细介绍了功能核酸与金属之间的相互作用,主要包括DNA/RNA切割型、连接型、错配型、点击化学型、构象改变型以及其它类型;以及功能核酸与不同信号输出方式相结合的生物传感器。最后讨论了功能核酸在金属离子检测过程中的优势以及现存的问题,对功能核酸生物传感器未来的发展方向以及应用前景进行了展望。     

不同价态金属离子对DNA构象的影响

用紫外分光光度法研究了不同价态金属离子对DNA大分子溶液构象的影响。研究结果显示: 金属离子与DNA的作用使DNA溶液的紫外吸收值下降, 即呈现减色效应, 同时减色效应的强弱与金属离子的价态有关。随着价态升高, 减色效应增强。由此说明, 金属离子与DNA的作用使DNA的构象趋于缩拢; 且随着金属离子价态升高, 缩拢程度增强, 甚至产生缩合。还用现代多聚电解质理论对以上现象进行了讨论, 结果是令人满意的。     

多柔比星稀土金属离子配合物与DNA相互作用的研究

用紫外分光光度法和荧光光谱法研究了多柔比星( Adriamycin,ADM)稀土金属离子配合物(ADM-M)与DNA的相互作用.结果发现,在pH=7.0时,ADM与Eu3+、yb3+能形成稳定配合物,该配合物可使DNA的最大吸收产生明显的减色效应及红移,并能够竞争置换溴化乙锭(EB)与DNA的结合点.KI猝灭试验发现D...     

金属离子存在下5-氟尿嘧啶与脱氧核糖核酸、血清白蛋白的相互作用

用紫外光谱、荧光光谱、圆二色谱法等方法研究了抗癌药物5－氟尿嘧啶（5－fluorouracil,5-FU）DNA、血清蛋白的相互作用及某些二阶金属离子对其作用的影响。求得5－FU与HSA、BSA的结合常数。     

金属离子存在下DNA与芍药苷相互作用的分子光谱研究

在生理酸度(pH=7.4)条件下,采用紫外-可见光谱法、荧光光谱法及熔点实验,研究了芍药苷与小牛胸腺DNA的相互作用以及Zn2+、Ca2+和Mg2+的影响。结果表明:芍药苷主要以沟槽模式与DNA结合。Zn2+、Ca2+和Mg2+分别能不同程度影响芍药苷的吸收光谱和DNA-双苯并咪唑(Hoechst 33258)复合物的荧光强度。随着体系中Mg2+浓度的增加,DNA-芍药苷复合物的结合常数呈现出先增大后减小的趋势,增加Zn2+的量则使复合物的结合常数逐渐增大,Ca2+浓度的增大对复合物结合常数的影响类似且弱于Zn2+。3种金属离子对DNA-芍药苷结合的影响取决于金属离子与DNA碱基以及磷酸基团间的结合程度。     

新型三足席夫碱稀土配合物的合成,表征及与DNA的作用

合成了新型三足席夫碱配体(L)和它的5种稀土配合物. 通过元素分析、摩尔电导、热重分析、红外光谱测试技术对配合物的结构进行了表征. 结果表明,该配合物 [LnL(NO3)2]NO3·H2O(Ln:La,Sm,Eu,Gd,Y)是按照L∶ Ln=1∶ 1配位,并且有2个硝酸根参与了配位,金属离子采取8配位的模式. 采用荧光光谱法研究了这5种席夫碱配合物与DNA的相互作用. 实验结果表明,配合物均可与DNA发生相互作用,而且相互作用为插入方式.     

DNA-cation interactions: quo vadis?

The interactions between double helical DNA and cations, specifically mono- and divalent metal ions, have recently received increased attention. Molecular dynamics simulations, solution NMR, and X-ray crystallography have all shed light on the coordination of ions in the major and minor grooves of DNA. Metal ion interactions may play key roles in the control of DNA conformation and topology, but despite progress in locating the ions and determining their precise binding modes, it remains difficult to figure out just how important ions really are. What have we learned and what remains to be done?     

Development of a Metal‐Ion‐Mediated Base Pair for Electron Transfer in DNA

A new C‐nucleoside structurally based on the hydroxyquinoline ligand was synthesized that is able to form stable pairs in DNA in both the absence and the presence of metal ions. The interactions between the metal centers in adjacent Cu^II‐mediated base pairs in DNA were probed by electron paramagnetic resonance (EPR) spectroscopy. The metal–metal distance falls into the range of previously reported values. Fluorescence studies with a donor–DNA–acceptor system indicate that photoinduced charge‐transfer processes across these metal‐ion‐mediated base pairs in DNA occur more efficiently than over natural base pairs.     

The interaction between G-quadruplex-forming oligonucleotide and cationic surfactant monolayer at the air/water interface

We report on the interactions between a 21-mer quadruplex-forming oligonucleotide bearing human telomere sequence of dG(3)(T(2)AG(3))(3) (G4 DNA) and a positively charged dioctadecyldimethylammonium bromide (DODAB) monolayer at the air-aqueous interface, studied by surface film balance measurements. In the presence of G4 DNA, the π-A isotherm of the cationic Langmuir film shifted to lower molecular areas when compared with the reference isotherm recorded on the subphase containing only 50 mM triethylamine-acetate (TEAA) buffer. The presence of quadruplex-stabilizing metal cations (K(+) or Na(+)) further affected profiles of π-A isotherms. Further insight into processes related to the G4 DNA-monolayer interactions was provided by recording time profiles of the surface pressure of monolayer at a constant mean molecular area. In these experiments G4 DNA and/or metal ions were sequentially injected under the monolayer surface. Results indicated that multistranded assemblies of G4 DNA were formed at the monolayer interface even in the absence of metal ions, which suggested that the charged cationic surface of Langmuir monolayer induced aggregation of guanine-rich DNA strands. The presence of sodium and potassium ions inhibited formation of multi-stranded assemblies through the competitive G-quadruplex formation but to different extent that might be related to the differences in stability and topology of both quadruplexes.     

Quenching of fluorophore-labeled DNA oligonucleotides by divalent metal ions: implications for selection, design, and applications of signaling aptamers and signaling deoxyribozymes

Recent years have seen a dramatic increase in the use of fluorescence-signaling DNA aptamers and deoxyribozymes as novel biosensing moieties. Many of these functional single-stranded DNA molecules are either engineered to function in the presence of divalent metal ion cofactors or designed as sensors for specific divalent metal ions. However, many divalent metal ions are potent fluorescence quenchers. In this study, we first set out to examine the factors that contribute to quenching of DNA-bound fluorophores by commonly used divalent metal ions, with the goal of establishing general principles that can guide future exploitation of fluorescence-signaling DNA aptamers and deoxyribozymes as biosensing probes. We then extended these studies to examine the effect of specific metals on the signaling performance of both a structure-switching signaling DNA aptamer and an RNA-cleaving and fluorescence-signaling deoxyribozyme. These studies showed extensive quenching was obtained when using divalent transition metal ions owing to direct DNA-metal ion interactions, leading to combined static and dynamic quenching. The extent of quenching was dependent on the type of metal ion and the concentration of supporting monovalent cations in the buffer, with quenching increasing with the number of unpaired electrons in the metal ion and decreasing with the concentration of monovalent ions. The extent of quenching was independent of the fluorophore, indicating that quenching cannot be alleviated simply by changing the nature of the fluorescent probe. Our results also show that the DNA sequence and the local secondary structure in the region of the fluorescent tag can dramatically influence the degree of quenching by divalent transition metal ions. In particular, the extent of quenching is predominantly determined by the fluorophore location with respect to guanine-rich and duplex regions within the strand sequence. Examination of the effect of both the type and concentration of metal ions on the performance of a fluorescence-signaling aptamer and a signaling deoxyribozyme confirms that judicious choice of divalent transition metal ions is important in maximizing signals obtained from such systems.     

Influence of Mg2+ and Cd2+ on the interaction between sparfloxacin and calf thymus DNA

Mg(2+) and Cd(2+) have different binding capacity to sparfloxacin, and have different combination modes with calf thymus DNA. Selecting these two different metal ions, the influence of them on the binding constants between SPFX and calf thymus DNA, as well as the related mechanism have been studied by using absorption and fluorescence spectroscopy. The result shows that Cd(2+) has weak binding capacity to SPFX in the SPFX-Cd(2+) binary system, but can decrease the binding between SPFX and DNA obviously in SPFX-DNA-Cd(2+) ternary system. Mg(2+) has strong binding capacity to SPFX. It can increase the binding between SPFX and DNA at concentrations <0.01 mM, and decrease the binding between them at concentrations >0.01 mM. Referring to the different modes of Mg(2+) and Cd(2+) binding to DNA, the mechanism of the influence of metal ions on the binding between SPFX and DNA has been proposed. SPFX can directly bind to DNA by chelating DNA base sites. If a metal ion at certain concentration mainly binds to DNA bases, it can decrease the binding constants between SPFX and DNA through competing with SPFX. While if a metal ion at certain concentration mainly binds to phosphate groups of DNA, it can increase the binding constants by building a bridge between SPFX and DNA. The influence direction of metal ions on the binding between quinolone and DNA relays on their binding ratio of affinity for bases to phosphate groups on DNA. Our result supports Palumbo's conclusion that the binding between SPFX and the phosphate groups is the precondition for the combination between SPFX and DNA, which is stabilized through stacking interactions between the condensed rings of SPFX and DNA bases.     

Structural,Electronic, and Optical Properties of Metallo Base Pairs in Duplex DNA: A Theoretical Insight

Using density functional theory calculations, we investigated the structural, energetic, electronic, and optical properties of recently synthesized duplex DNA containing metal‐mediated base pairs. The studied duplex DNA consists of three imidazole (Im) units linked through metal (Im‐M‐Im, M=metal) and four flanking A:T base pairs (two on each side). We examined the role of artificial base pairing in the presence of two distinctive metal ions, diamagnetic Ag⁺ and magnetic Cu²⁺ ions, on the stability of duplex DNA. We found that metal‐mediated base pairs form stable duplex DNA by direct metal ion coordination to the Im bases. Our results suggest a higher binding stability of base pairing mediated by Cu²⁺ ions than by Ag⁺ ions, which is attributed to a larger extent of orbital hybridization. We furthermore found that DNA modified with Im‐Ag⁺‐Im shows the low‐energy optical absorption characteristic of π–π*orbital transition of WC A:T base pairs. On the other hand, we found that the low‐energy optical absorption peaks for DNA modified with Im‐Cu²⁺‐Im originate from spin–spin interactions. Additionally, this complex exhibits weak ferromagnetic coupling between Cu²⁺ ions and strong spin polarization, which could be used for memory devices. Moreover, analyzing the role of counter ions (Na⁺) and the presence of explicit water molecules on the structural stability and electronic properties of the DNA duplex modified with Im‐Ag⁺‐Im, we found that the impact of these two factors is negligible. Our results are fruitful for understanding the experimental data and suggest a potential route for constructing effective metal‐mediated base pairs in duplex DNA for optoelectronic applications.     

Differential interactions of plasmid DNA, RNA and endotoxin with immobilised and free metal ions

Separation of negatively charged molecules, such as plasmid DNA (pDNA), RNA and endotoxin forms a bottleneck for the development of pDNA vaccine production process. The use of affinity interactions of transition metal ions with these molecules may provide an ideal separation methodology. In this study, the binding behaviour of pDNA, RNA and endotoxin to transition metal ions, either in immobilised or free form, was investigated. Transition metal ions: Cu2+, Ni2+, Zn2+, Co2+ and Fe3+, typically employed in the immobilised metal affinity chromatography (IMAC), showed very different binding behaviour depending on the type of metal ions and their existing state, i.e. immobilised or free. In the alkaline cell lysate, pDNA showed no binding to any of the IMAC chemistries tested whereas RNA interacted significantly with Cu2+-iminodiacetic acid (IDA) and Ni2+-IDA but showed no substantial binding to the rest of the IMAC chemistries. pDNA and RNA, however, interacted to varying degrees with free metal ions in the solution. The greatest selectivity in terms of pDNA and RNA separation was achieved with Zn2+ which enabled almost full precipitation of RNA while keeping pDNA soluble. For both immobilised and free metal ions, ionic strength of solution affected the metal ion-nucleic acid interaction significantly. Endotoxin, being more flexible, was able to interact better with the immobilised metal ions than the nucleic acids and showed binding to all the IMAC chemistries. The specific interactions of immobilised and/or free metal ions with pDNA, RNA and endotoxin showed a good potential, by selectively removing RNA and endotoxin at high efficiency, to develop a simplified pDNA purification process with improved process economics.