arXiv 0806.33682008-06-20physics.chem-phphysics.bio-ph

Binding Isotherms and Cooperative Effects for Metal-DNA Complexes

Eteri Gelagutashvili

备注：: 13 pages, 0 figures

英文摘要：

The stoichiometric binding constants of Nickel(II), Cobalt(II), Manganese(II), Silver(I), Zinc(II) ions with DNA, from Spirulina platensis were determined from their binding isotherms by equilibrium dialysis and atomic absorption spectroscopy. It was shown, that the nature of these ions interaction with DNA, from S .platensis is different. For Cobalt(II), Zinc(II) ions were observed cooperative effects and existence of two different types of the binding sites. Nickel(II)_, Silver(I) -DNA complexes shows independent and identical binding sites and Manganese(II)_ negative cooperative interaction. The logarithm of binding constants for Cobalt (II)_, Nickel (II)_, Manganese (II)_, Zinc (II)_, Silver (I) - DNA, from S. platensis in 3 mM Na(I) are 5.11; 5.18; 4.77; 5.05; 5.42; respectively. The linear correlation of logarithm of binding constants (for complexes of metal-DNA from S. platensis) and the covalent index of Pauling are observed.

机构、总结、中文摘要均由AI分析而来，可能存在错误，请以论文正文为准。

阅读原文

阅读 PDF ↗

arXiv 页面 ↗HTML 原文 ↗

本文内容

英文摘要相关论文

机构、总结、中文摘要均由AI分析而来，可能存在错误，请以论文正文为准。

继续探索

相关论文

Influence of DNA on Ag(I)-C-Phycocyanin complexes

The effects of DNA on the fluorescence of silver phycocyanin complexes were investigated. It was shown, that the fluorescence intensity of phycocyanin decreases, when silver ions are added but the following DNA addition gives rise to fluorescence buildup. Fluorescence spectroscopy provides insight of silver phycocyanin interactions. Fluorescence measurements demostrate phycocyanin quenching of silver emission intensities. SternVolmer quenching constant was obtained from the linear quenching plot. Blue shifts in the fluorescence spectra were observed during silver binding to phycocyanin.

2008-07-08physics.chem-ph

Tin-DNA Complexes Investigated by Nuclear Inelastic Scattering of Synchrotron Radiation

Nuclear inelastic scattering (NIS) of synchrotron radiation has been used to investigate the dynamics of tin ions chelated by DNA. Theoretical NIS spectra have been simulated with the help of density functional theory (DFT) calculations using 12 models for different binding sites of the tin ion in (CH3)Sn(DNAPhosphate)2. The simulated spectra are compared with the measured spectrum of the tin-DNA complex.

2012-06-13physics.chem-ph

The effect of topology on the structure and free energy landscape of DNA kissing complexes

We use a recently developed coarse-grained model for DNA to study kissing complexes formed by hybridization of complementary hairpin loops. The binding of the loops is topologically constrained because their linking number must remain constant. By studying systems with linking numbers -1, 0 or 1 we show that the average number of interstrand base pairs is larger when the topology is more favourable for the right-handed wrapping of strands around each other. The thermodynamic stability of the kissing complex also decreases when the linking number changes from -1 to 0 to 1. The structures of the…

2012-03-15cond-mat.softphysics.bio-phphysics.chem-ph

Complexes of DNA Bases and Small Gold Clusters

DNA base-gold interactions are studied theoretically at the DFT level using Au3 and Au4 clusters as simple catalytic models for Au particles. The bonding between DNA bases and gold clusters occurs via the anchoring of a Au atom to the N or O atoms of the bases. In the most stable planar base-Au3 complexes, the Au-N or Au-O anchor bonds are reinforced by N-H...Au bonds. The mechanism of formation of these nonconventional H-bonds is discussed.

2005-04-07physics.chem-phphysics.comp-ph

The Importance of Short- and Long-Range Exchange on Various Excited State Properties of DNA Monomers, Stacked Complexes, and Watson-Crick Pairs

We present a detailed analysis of several time-dependent DFT (TD-DFT) methods, including conventional hybrid functionals and two types of non-empirically tuned range-separated functionals, for predicting a diverse set of electronic excitations in DNA nucleobase monomers and dimers. This large and extensive set of excitations comprises a total of 50 different transitions (for each tested DFT functional) that includes several n $\rightarrow$ π and π $\rightarrow$ π* valence excitations, long-range charge-transfer excitations, and extended Rydberg transitions (complete with benchmark calculations…

2018-03-06physics.atm-clusphysics.bio-phphysics.chem-ph

Entropy-Enthalpy Compensation May Be a Useful Interpretation Tool for Complex Systems Like Protein-DNA Complexes: An Appeal to Experimentalists

In various chemical systems enthalpy-entropy compensation (EEC) is a well-known rule of behavior, although the physical roots of it are still not completely understood. It has been frequently questioned whether EEC is a truly physical phenomenon or a coincidence due to trivial mathematical connections between statistical-mechanical parameters - or even simpler: A phantom effect resulting from the misinterpretation of experimental data. Here, we review EEC from a new standpoint using the notion of correlation which is essential for the method of factor analysis, but is not conventional in physi…

2012-02-26cond-mat.stat-mechphysics.bio-phphysics.chem-ph

更多相关论文收起更多论文

Inverse Temperature Dependence of Nuclear Quantum Effects in DNA Base Pairs

Despite the inherently quantum mechanical nature of hydrogen bonding, it is unclear how nuclear quantum effects (NQEs) alter the strengths of hydrogen bonds. With this in mind, we use ab initio path integral molecular dynamics to determine the absolute contribution of NQEs to the binding in DNA base pair complexes, arguably the most important hydrogen-bonded systems of all. We find that depending on the temperature, NQEs can either strengthen or weaken the binding within the hydrogen-bonded complexes. As a somewhat counterintuitive consequence, NQEs can have a smaller impact on hydrogen bond s…

2016-11-18physics.chem-ph

Coarse-grained Modeling of DNA Curvature

Modeling of DNA-protein interactions is a complex process involving many important time and length scales. This can be facilitated through the use of coarse-grained models which reduce the number of degrees of freedom and allow efficient exploration of binding configurations. It is known that the local structure of DNA can significantly affect its protein-binding properties (i.e. intrinsic curvature in DNA-histone complexes). In a step towards comprehensive DNA-protein modeling, we expand the 3SPN.2 coarse-grained model to include intrinsic shape, and validate the refined model against experim…

2014-04-30physics.bio-phphysics.chem-phq-bio.BM

铂配合物吸收光谱高效计算：用于癌症检测的发光探针

Efficient Calculation of Absorption Spectra of Platinum Complexes Used as Luminescent Probes for Cancer Detection

University of Southern Denmark（南丹麦大学）；University of Duisburg-Essen（杜伊斯堡-埃森大学）

本文提出了一种高效计算铂配合物吸收光谱的方法，推荐PBEh-3c在准确性和效率之间取得最佳平衡。

2026-08-18physics.chem-ph

Dynamics of Metal Centers Monitored by Nuclear Inelastic Scattering

Nuclear inelastic scattering of synchrotron radiation has been used now since 10 years as a tool for vibrational spectroscopy. This method has turned out especially useful in case of large molecules that contain a Mössbauer active metal center. Recent applications to iron-sulfur proteins, to iron(II) spin crossover complexes and to tin-DNA complexes are discussed. Special emphasis is given to the combination of nuclear inelastic scattering and density functional calculations.

2012-06-13physics.chem-ph

Gluconate and hexitols effects on C-S-H solubility

This study investigates the effect of gluconate, a carboxylate ion, and three uncharged hexitols, D-sorbitol, D-mannitol and D-galactitol on the solubility of C-S-H. Thermodynamic modeling was used to determine the kind and amount of Ca-organic-silicate-OH complexes that potentially form in the conditions studied. All the organics form complexes with calcium and hydroxide, In addition, heteropolynuclear organics complexes with calcium, hydroxide and silicate are observed at high pH values and high calcium concentrations with the exception of mannitol. The strength of complexation with silicate…

2022-05-10physics.chem-ph

温敏性刷型聚电解质与带相反电荷表面活性剂的络合作用：温度与表面活性剂浓度的影响

Complexation of a Thermoresponsive Brush-Type Polyelectrolyte with an Oppositely Charged Surfactant: Effect of Temperature and Surfactant Concentration

本研究构建了含PNIPAAm的刷型温敏共聚物PECop，探究其与阳离子表面活性剂DTAB的络合行为随浓度和温度的变化，发现热响应随表面活性剂浓度升高反转的现象，为药物递送系统设计提供新思路。

2025-08-04cond-mat.softphysics.chem-ph