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81.
Mordvintsev DY Polyak YL Levtsova OV Tourleigh YV Kasheverov IE Shaitan KV Utkin YN Tsetlin VI 《Computational Biology and Chemistry》2005,29(6):398-411
Short-chain alpha-neurotoxins from snakes are highly selective antagonists of the muscle-type nicotinic acetylcholine receptors (nAChR). Although their spatial structures are known and abundant information on topology of binding to nAChR is obtained by labeling and mutagenesis studies, the accurate structure of the complex is not yet known. Here, we present a model for a short alpha-neurotoxin, neurotoxin II from Naja oxiana (NTII), bound to Torpedo californica nAChR. It was built by comparative modeling, docking and molecular dynamics using 1H NMR structure of NTII, cross-linking and mutagenesis data, cryoelectron microscopy structure of Torpedo marmorata nAChR [Unwin, N., 2005. Refined structure of the nicotinic acetylcholine receptor at 4A resolution. J. Mol. Biol. 346, 967-989] and X-ray structures of acetylcholine-binding protein (AChBP) with agonists [Celie, P.H., van Rossum-Fikkert, S.E., van Dijk, W.J., Brejc, K., Smit, A.B., Sixma, T.K., 2004. Nicotine and carbamylcholine binding to nicotinic acetylcholine receptors as studied in AChBP crystal structures. Neuron 41 (6), 907-914] and antagonists: alpha-cobratoxin, a long-chain alpha-neurotoxin [Bourne, Y., Talley, T.T., Hansen, S.B., Taylor, P., Marchot, P., 2005. Crystal structure of Cbtx-AChBP complex reveals essential interactions between snake alpha-neurotoxins and nicotinic receptors. EMBO J. 24 (8), 1512-1522] and alpha-conotoxin [Celie, P.H., Kasheverov, I.E., Mordvintsev, D.Y., Hogg, R.C., van Nierop, P., van Elk, R., van Rossum-Fikkert, S.E., Zhmak, M.N., Bertrand, D., Tsetlin, V., Sixma, T.K., Smit, A.B., 2005. Crystal structure of nicotinic acetylcholine receptor homolog AChBP in complex with an alpha-conotoxin PnIA variant. Nat. Struct. Mol. Biol. 12 (7), 582-588]. In complex with the receptor, NTII was located at about 30 A from the membrane surface, the tip of its loop II plunges into the ligand-binding pocket between the alpha/gamma or alpha/delta nAChR subunits, while the loops I and III contact nAChR by their tips only in a 'surface-touch' manner. The toxin structure undergoes some changes during the final complex formation (for 1.45 rmsd in 15-25 ps according to AMBER'99 molecular dynamics simulation), which correlates with NMR data. The data on the mobility and accessibility of spin- and fluorescence labels in free and bound NTII were used in MD simulations. The binding process is dependent on spontaneous outward movement of the C-loop earlier found in the AChBP complexes with alpha-cobratoxin and alpha-conotoxin. Among common features in binding of short- and long alpha-neurotoxins is the rearrangement of aromatic residues in the binding pocket not observed for alpha-conotoxin binding. Being in general very similar, the binding modes of short- and long alpha-neurotoxins differ in the ways of loop II entry into nAChR. 相似文献
82.
The ultrasonic degradation of novel propylene based plastomer (DP) melts with different melt viscosities was conducted in a “static” ultrasonic device where the samples were taken from various distances from the tip of an ultrasonic probe. The effects of ultrasonic time, oscillation temperature, ultrasonic intensity and the distance from the ultrasonic probe tip on the degradation behavior of DP melts as well as the ultrasonic degradation effect on the linear rheological behavior of DP melts were studied. The results show that the increase of initial melt viscosity of DP (higher molecular weight) has greater impact on the ultrasonic degradation of DP melt. The molecular weight and intrinsic viscosity of DP decrease with the increase of ultrasonic oscillation time and they approach to a limiting value. The molecular weight distribution of DP increases after ultrasonic degradation. Decreasing oscillation temperature and distance from probe tip and increasing ultrasonic intensity lead to an increase in the degradation of DP melt. The linear rheological behavior measurements of the samples obtained near the ultrasonic probe tip show that ultrasonic oscillations decrease the complex viscosity, zero shear viscosity, viscoelastic moduli, cross modulus, relaxation time and the slope of log G′ − log G″ for DP melts. 相似文献
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酚醛基活性炭纤维孔结构及其电化学性能研究 总被引:8,自引:0,他引:8
利用水蒸汽活化法制备了酚醛基活性炭纤维(ACF-H2O), 对其比表面积、孔结构与在LiClO4/PC(聚碳酸丙烯酯)有机电解液中的电容性能之间的关系进行了探讨. 用N2(77 K)吸附法测定活性炭纤维的孔结构和比表面积, 用恒流充放电法和交流阻抗技术测量双电层电容器(EDLC)的电容量及内部阻抗. 研究表明, 在LiClO4/PC有机电解液中, ACF-H2O电极的可用孔径(d)应在0.7 nm以上. 随着活化时间的延长, ACF-H2O的孔容和比表面不断增大, 但微孔(0.7 nm < d < 2.0 nm)和中孔(d > 2.0 nm)率变化很小, 活化过程中孔的延伸和拓宽同步进行, 但过度活化则造成孔壁塌陷, 孔容和比表面迅速下降. 因此, 除活化过度的样品外, 电容量随比表面积呈线性增长, 最高达到109. 6 F•g-1. 但中孔和微孔的孔表面对电容的贡献不同, 其单位面积电容分别为8.44 μF•cm-2和4.29 μF•cm-2, 中孔具有更高的表面利用率. ACF-H2O电极的电容量、阻抗特性和孔结构密切相关. 随着孔径的增大, 时间常数减小, 电解液离子更易于向孔内快速迁移, 阻抗降低, 电极具有更好的充放电倍率特性. 因此, 提高孔径和比表面积, 减少超微孔(d < 0.7 nm), 是提高 EDLC能量密度和功率密度的重要途径. 然而仅采用水蒸汽活化, 只能在小中孔以下的孔径范围内进行调孔, ACF-H2O电极电容性能的提高受限. 相似文献
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We present a computational protocol which uses the known three-dimensional structure of a target enzyme to identify possible ligands from databases of compounds with low molecular weight. This is accomplished by first mapping the essential interactions in the binding site with the program GRID. The resulting regions of favorable interaction between target and ligand are translated into a database query, and with UNITY a flexible 3D database search is performed. The feasibility of this approach is calibrated with thrombin as the target. Our results show that the resulting hit lists are enriched with thrombin inhibitors compared to the total database. 相似文献
87.
本文提出一种可扩展性强的高速crossbar调度算法——iRGRR(iterative request-grant-based round-robin),它通过简化处理流程和减小调度开销,克服了传统算法(例如iSLIP[1]、PIM[2])可扩展性差的缺陷.iRGRR将控制信息复杂度从O(N)级大大减小到O(logN)级,具有良好的可扩展性,可应用于太比特交换机/路由器中.仿真结果表明,在各种不同的均匀和非均匀业务流下,iRGRR能够获得与iSLIP几乎相同的性能.另外,iRGRR比iSLIP具有更好的公平性以及更加易于用硬件实现. 相似文献
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