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101.
Wt streptavidin forms a domain swapped tetramer consisting of two native dimers. The role of tetramerization has been studied previously and is known to contribute to biotin binding by allowing the exchange of W120 between adjacent subunits. However, the role of dimer formation in streptavidin folding and function has been largely overlooked to date, although native dimers are necessary for tetramer formation and thus for high affinity biotin binding. To understand how the side chain interactions at the dimer interface stabilize the subunit association, we studied the structural and functional consequences of introducing interfacial mutations by a combination of molecular dynamics (MD) simulation and biochemical characterization. In particular, we introduced rational mutations at the dimer interface to engineer new side chain interactions and measured the stability and function of the resulting mutants. We focused on two residues that form a "knob" and a "hole" pair, G74 and T76, since steric complementarity plays an important role at these positions. We introduced mutations that would change the polarity and side chain packing to test if the interface can be rationally redesigned. Both energy calculation and geometric parameterization were used to interpret the simulated structures and predict how the mutations affect the dimer stability. In this regard, obtaining precise energy estimates was difficult because the simulated structures have large stochastic variations and some mutants did not reach an equilibrium by the end of the simulation. In contrast, comparing the wt and mutants to one another and parameterizing the simulation using a geometric parameter, i.e. the degree of solvation of the buried interface, resulted in a testable prediction regarding which mutations would result in a stable dimer. We present experimental data (denaturation and binding measurements) to show that an intuitive parameter based on physical reasoning can be useful for characterizing simulations that are difficult to analyze quantitatively. 相似文献
102.
Ling-Yuan Hsu Shi-Jinn Horng Pingzhi Fan Muhammad Khurram Khan Yuh-Rau Wang Ray-Shine Run Jui-Lin Lai Rong-Jian Chen 《Expert systems with applications》2011,38(5):5525-5531
In this paper, we proposed a modified turbulent particle swarm optimization (named MTPSO) model for solving planar graph coloring problem based on particle swarm optimization. The proposed model is consisting of the walking one strategy, assessment strategy and turbulent strategy. The proposed MTPSO model can solve the planar graph coloring problem using four-colors more efficiently and accurately. Compared to the results shown in Cui et al. (2008), not only the experimental results of the proposed model can get smaller average iterations but can get higher correction coloring rate when the number of nodes is greater than 30. 相似文献
103.
Kuo-Liang Chung Soo-Chang Pei Ying-Lin Pan Wei-Ling Hsu Yong-Huai Huang Wei-Ning Yang Chyou-Hwa Chen 《Expert systems with applications》2011,38(3):1591-1601
This paper presents a gradient-based adaptive error diffusion method with edge enhancement effect while preserving the smoothness effect. The proposed method not only can modulate the threshold in halftoning dynamically but also can determine the weights of the error diffusion filter adaptively to diffuse the quantization error to neighboring pixels properly. Under six testing images, experimental results demonstrate that our proposed new error diffusion method has a good compromise between the edge enhancement effect in the halftone image and the image quality effect in the corresponding inverse halftone image when compared to the methods by Floyd–Steinberg, Eschbach and Knox, Hwang et al., Li, and Feng et al., but it has some execution-time degradation. 相似文献
104.
Traditional caching technology is not applicable to cache video streaming objects over heterogeneous networking environments. The popularity of mobile devices in the heterogeneous networking environments make the access of Internet content become a common phenomenon. To support different mobile devices in the heterogeneity networking environments, a transcoding proxy is used to transcode different versions of the streaming videos according to clients’ requests. In this paper, we propose a weighted caching replace strategy for video streaming objects over heterogeneous networking environments. A new caching algorithm with static weight transcoding graph and dynamic caching relation tree is introduced. The proposed algorithm is compared with LRU, LFU, CP and PF cache algorithms in three parts: hit ratio, byte hit ratio, and average transmission delay. Experimental results show that the proposed algorithm outperforms than traditional LRU, LFU, CP and PF cache algorithms. 相似文献
105.
Li-Chang Hsu 《Expert systems with applications》2011,38(11):13879-13885
Numerous forecasting models have been developed. Each has its own conditions of application. However, it has always been an important research objective to improve prediction accuracy with a small amount of data. In recent years, the grey forecasting model has achieved good prediction accuracy with limited data and has been widely used in various research fields. However, the grey forecasting models still have some potential problems that need to be improved. Therefore, this study proposed an improved transformed grey model based on a genetic algorithm (ITGM(1,1)), and used the output of the opto-electronics industry in Taiwan from 1990 to 2008 as an example for verification. Three grey forecasting models, GM(1,1), rolling GM(1,1), and the transformed GM(1,1), were chosen for the purpose of comparison with ITGM(1,1) by mean absolute percent error and root mean square percent error. The results show that ITGM(1,1) is more accurate than the other three models in both in-sample and out-of-sample forecasting performance, and can greatly improve the accuracy of short-term forecasts. 相似文献
106.
Feature selection aims at finding the most relevant features of a problem domain. It is very helpful in improving computational speed and prediction accuracy. However, identification of useful features from hundreds or even thousands of related features is a nontrivial task. In this paper, we introduce a hybrid feature selection method which combines two feature selection methods – the filters and the wrappers. Candidate features are first selected from the original feature set via computationally-efficient filters. The candidate feature set is further refined by more accurate wrappers. This hybrid mechanism takes advantage of both the filters and the wrappers. The mechanism is examined by two bioinformatics problems, namely, protein disordered region prediction and gene selection in microarray cancer data. Experimental results show that equal or better prediction accuracy can be achieved with a smaller feature set. These feature subsets can be obtained in a reasonable time period. 相似文献
107.
This paper presents a scheme for collaborative 3D design using product model at various levels of detail (LODs). Design features are selectively hidden at each level from certain participants, depending on their actual needs and individual accessibility in the collaboration. A tree data structure represents the feature hierarchy of CAD construction, the link between feature and LOD, and 2D mesh data for display control of each feature. An XML/XSLT-based approach is proposed to enable real-time visualization of different LOD models in distributed environment. A collaborative design system is implemented using multi-agent technologies, which focuses on function design of each agent, interactions among agents, the client–server structure, and generation of the LOD data using the XML/XSLT approach. A scenario of synchronous 3D mold assembly demonstrates that geometric categorization of product model provides an operational mechanism for assuring security of information sharing in engineering collaborations over the Internet. It also validates the effectiveness of the agent technologies for automating complex engineering activities. 相似文献
108.
The objective of this study is to investigate whether work fatigue and physiological symptoms that high-elevation construction workers experience would be affected by the occupations. Questionnaires of demographic data and subjective fatigue symptoms as well as some physiological measurements were carried out, pre- and post-shift, on scaffolders, steel fixers, formworkers, electrician-plumbers, concreters and miscellaneous workers at a high-rise building construction site. This study found that some subjective fatigue symptoms coincide with the life style of some workers and that the extent of fatigue symptoms and physiological strains varies among different occupations of construction workers. Scaffolders, steel fixers and formworkers are categorized as physically demanding fatigue type of workers, while concreters, electrician-plumbers and miscellaneous workers as general type. The prevalence and occurrence of subjective fatigue symptoms indicate high-elevation workers have more complaints of “projection of physical impairment” than “drowsiness and dullness” and “difficulty in concentration”. Some unexpected changes (i.e., post-shift measurements are greater than pre-shift ones) in some strength tests in scaffolders and concreters were consistent with the observations of how they exercised their bodies during work shift. Considerable variation of average heart rate among occupations was found, with scaffolders the highest and concreters the lowest. This study concludes that questionnaires of subjective fatigue symptoms and some physiological measurements can be used as indicators to predict the extent of strains or hazards which construction workers encounter. In terms of management program of safety and health, more attention should be paid to those physically demanding workers, such as scaffolders, workers with lower sense of safety and health, such as miscellaneous workers, and workers with older age, such as concreters. 相似文献
109.
Recently, Yang et al. proposed an efficient user identification scheme with key distribution, in which it is possible for the user to anonymously log into a system and establish a secret key shared with the system. Mangipudi and Katti later demonstrated a Deniable-of-Service (DoS) attack on the Yang et al. scheme and then proposed an improvement to withstand such an attack. However, this paper demonstrates an identity disclosure attack to show that neither schemes’ claimed user anonymity requirement can be achieved. We further propose a novel user identification scheme with key distribution preserving user anonymity for distributed computer networks. The proposed scheme not only withstands the attacks mentioned above, but also achieves the following: (i) user anonymity, (ii) key distribution, (iii) mutual authentication, and (iv) key confirmation. The performance of our scheme is of greater efficiency than that of previously proposed schemes in terms of communication costs and computational complexities. 相似文献
110.