Applications of Oblique-Incidence Reflectivity Difference Method in Primary Study of Protein Biomolecules

Oblique-incidence reflectivity difference （OI-RD） analysis is applied to detect the immunoglobulin-G and cytochrome biomolecules on standard glass substrates without fluorescence labelling. The OI-RD intensities not only depend on the protein structure, but also vary with the protein concentration. The results indicate that this method should have potential applications in detection of biochemical processes.     

Bio-energy in s-Helix Protein Molecules with Three Properties of Soliton-Transported Channels

We study numerically the propagating properties of soliton-transported bio-energy excited in the a-helix protein molecules with three channels in the cases of the short-time and long-time motions and its features of collision at temperature T = 0 and biological temperature T = 300 K by the dynamic equations in the improved Davydov theory and fourth-order Runge-Kutta method, respectively. From these simulation experiments we see that the new solitons in the improved model can move without dispersion at a constant speed retaining its shape and energy in the cases of motion of both short-time or T = 0 and long time or T = 300 K and can go through each other without scattering in their collisions. In these cases its lifetime is, at least, 120 ps at 300 K, in which the soliton can travel over about 700 amino acid residues. This result is consistent with analytic result obtained by quantum perturbed theory in this model. In the meanwhile, the influences of structure disorder of a-helix protein molecules, including the inhomogeneous distribution of amino acids with different masses and fluctuations of spring constant, dipole-dipole interaction, exciton-phonon coupling constant and diagonal disorder, on the solitons are also studied by the fourth-order Runge-Kutta method. The results show that the soliton still is very robust against the structure disorders and thermal perturbation of proteins at biological temperature 300 K. Therefore we can conclude that the new soliton in the a-helix protein molecules with three channels is a possible carrier of bio-energy transport and the improved model is possibly a candidate for the mechanism of this transport.     

Dynamical Analysis of Protein Regulatory Network in Budding Yeast Nucleus

Recent progresses in the protein regulatory network of budding yeast Saccharomyces cerevisiae have provided a global picture of its protein network for further dynamical research. We simplify and modularize the protein regulatory networks in yeast nucleus, and study the dynamical properties of the core 37-node network by a Boolean network model, especially the evolution steps and final fixed points. Our simulation results show that the number of fixed points N（k） for a given size of the attraction basin k obeys a power-law distribution N（k） χ k^-2.024. The yeast network is more similar to a scale-free network than a random network in the above dynamical properties.     

Features of Motion of Soliton Transported Bio-energy in Aperiodic α-Helix Protein Molecules with Three Channels

The structure aperiodicities can influence seriously the features of motion of soliton excited in the α-helix protein molecules with three channels. We study the influence of structure aperiodicities on the features of the soliton in the improved model by numerical simulation and Runge-Kulta method. The results obtained show that the new soliton is very robust against the structure aperiodieities including large disorder in the sequence of mass of the amino acids and fluctuations of spring constant, coupling constant, dipole-dipole interactional constant, ground state energy and chain-chain interaction. However, very strong structure aperiodieities can also destroy the stability of the soliton in the α-helix protein molecules.     

生物软物质研究的新进展

文章对近年来中科院物理研究所软物质物理实验室生物软物质研究的部分新进展做一简略介绍,包括DNA单分子研究,DNA与组蛋白的相互作用动力学研究,生物分子马达的运动机制研究,解旋酶与DNA的结合以及解旋DNA的动力学研究,朊病毒片段聚集的分子动力学研究,蛋白质折叠动力学的脉冲升温-时间分辨光谱研究,光合细菌外周捕光天线膜蛋白的拓扑结构研究等.     

基态分子波函数对N2分子在强激光场中产生高次谐波的影响

在强场近似下,利用简单的近似波函数作为分子基态最高占据轨道的波函数,研究了N2分子在强激光场中产生高次谐波的特性,并将结果与用精确的分子波函数作为基态波函数得到的结果进行了比较.结果表明.采用这两种不同的分子基态波函数得到的高次谐波在分子轴与激光偏振方向间的夹角较小时符合得很好,而在夹角较大的情况下,两者的结果差异较大.通过分析不同波函数所给出的电子密度分布,给出了产生这种差异的原因.