• Title/Summary/Keyword: Multiple site interaction

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Protein-ligand interaction investigated by HSQC titration study

  • Lee, Joon-Hwa
    • Journal of the Korean Magnetic Resonance Society
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    • v.22 no.4
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    • pp.125-131
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    • 2018
  • Chemical shift perturbation (CSP) is a simple NMR technique for studying binding of a protein to various ligands. CSP is the only technique that can directly provide both a value for the dissociation constant and a binding site from the same set of measurements. To accurately analyze the CSP data, the exact binding mode such as multiple binding, should be carefully considered. In this review, we analyzed systematically the CSP data with multiple modes. This analysis might provide insight into the mechanism on how proteins selectively recognize their target ligands to achieve the biological function.

Factors influencing the English classes using a web-based bulletin board system (웹 게시판을 활용한 영어 수업에 영향을 미치는 요인분석 연구)

  • Kim, Jie-Young
    • English Language & Literature Teaching
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    • v.13 no.3
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    • pp.227-251
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    • 2007
  • The development and use of computer mediated communications (CMC) as a tool for teaching and learning English has grown considerably in recent years. The purpose of this study is to investigate factors related to learners' participation, achievement, and satisfaction in EFL classes using web-based bulletin boards. The total number of 77 university students participated in this study. Three domains and eight independent variables investigated in this study were a learner-related domain (attitudes toward CMC, intrinsic motivation, extrinsic motivation, attitudes toward writing), an interaction-related domain (student-student interaction, teacher-student interaction), and an environmental domain (physical support and design of the web site). In order to determine interrelation of variables correlation analysis and multiple regression analysis were used. The results of this study showed that the factors predicting a learner's participation were instrumental motivation, attitudes toward writing, and teacher-student interaction. The factors explaining a learner's achievement were learner's participation and attitudes toward writing, and the factors predicting a learner's satisfaction were integrative motivation, student-student interaction, teacher-student interaction, physical support and learner's participation.

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An Alternative Model for Determining the Optimal Fertilizer Level (수도(水稻) 적정시비량(適正施肥量) 결정(決定)에 대한 대체모형(代替模型))

  • Chang, Suk-Hwan
    • Korean Journal of Soil Science and Fertilizer
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    • v.13 no.1
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    • pp.21-32
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    • 1980
  • Linear models, with and without site variables, have been investigated in order to develop an alternative methodology for determining optimal fertilizer levels. The resultant models are : (1) Model I is an ordinary quadratic response function formed by combining the simple response function estimated at each site in block diagonal form, and has parameters [${\gamma}^{(1)}_{m{\ell}}$], for m=1, 2, ${\cdots}$, n sites and degrees of polynomial, ${\ell}$=0, 1, 2. (2) Mode II is a multiple regression model with a set of site variables (including an intercept) repeated for each fertilizer level and the linear and quadratic terms of the fertilizer variables arranged in block diagonal form as in Model I. The parameters are equal to [${\beta}_h\;{\gamma}^{(2)}_{m{\ell}}$] for h=0, 1, 2, ${\cdots}$, k site variable, m=1, 2, ${\cdots}$ and ${\ell}$=1, 2. (3) Model III is a classical response surface model, I. e., a common quadratic polynomial model for the fertilizer variables augmented with site variables and interactions between site variables and the linear fertilizer terms. The parameters are equal to [${\beta}_h\;{\gamma}_{\ell}\;{\theta}_h$], for h=0, 1, ${\cdots}$, k, ${\ell}$=1, 2, and h'=1, 2, ${\cdots}$, k. (4) Model IV has the same basic structure as Mode I, but estimation procedure involves two stages. In stage 1, yields for each fertilizer level are regressed on the site variables and the resulting predicted yields for each site are then regressed on the fertilizer variables in stage 2. Each model has been evaluated under the assumption that Model III is the postulated true response function. Under this assumption, Models I, II and IV give biased estimators of the linear fertilizer response parameter which depend on the interaction between site variables and applied fertilizer variables. When the interaction is significant, Model III is the most efficient for calculation of optimal fertilizer level. It has been found that Model IV is always more efficient than Models I and II, with efficiency depending on the magnitude of ${\lambda}m$, the mth diagonal element of X (X' X)' X' where X is the site variable matrix. When the site variable by linear fertilizer interaction parameters are zero or when the estimated interactions are not important, it is demonstrated that Model IV can be a reasonable alternative model for calculation of optimal fertilizer level. The efficiencies of the models are compared us ing data from 256 fertilizer trials on rice conducted in Korea. Although Model III is usually preferred, the empirical results from the data analysis support the feasibility of using Model IV in practice when the estimated interaction term between measured soil organic matter and applied nitrogen is not important.

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New Calculation of Charge Generation Efficiency and Photocurrent in Organic Photoconducting Device

  • Lee, Choong-Kun;Oh, Jin-Woo;Choi, Chil-Sung;Lee, Nam-Soo;Kim, Nak-Joong
    • Bulletin of the Korean Chemical Society
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    • v.30 no.1
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    • pp.97-101
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    • 2009
  • A new approach was applied to examine the charge generation and transport in organic photoconductive devices by Monte‐Carlo simulation utilizing multiple site interactions of carriers with all other charges within Coulomb radius. Stepwise generation frame was considered first by a charge separation process that was counted in two separate transactions, i.e., hopping against physical decay and dissociation against recombination. Thereafter, diffusion/ drifting process of free carriers was counted to follow. This method enables to examine readily the photocurrent generated alongside the charge generation efficiency. The field and temperature dependences of the efficiency and photocurrent were obtained comparable to Onsager’s and experimental data.

Effect of Copper Oxide on Migration and Interaction of Protons in Barium Zirconate (BaZrO3에서의 프로톤 전도와 상호작용에 대한 CuO의 영향)

  • Jeong, Yong-Chan;Kim, Dae-Hee;Kim, Byung-Kook;Kim, Yeong-Cheol
    • Journal of the Korean Ceramic Society
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    • v.48 no.2
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    • pp.195-199
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    • 2011
  • The effect of copper oxide on migration and interaction of protons in barium zirconate was investigated using density functional theory. One copper atom was substituted for a zirconium atom site, and a proton was added to a $3{\times}3{\times}3$ barium zirconate superstructure. An energy barrier of 0.89 eV for proton migration was the highest among several energy barriers. To investigate the interaction between multiple protons and a copper atom, two protons were added to the superstructure. Various proton positions were determined by the interaction between the two protons and the copper atom.

Multiple Functions of the Amino-terminal Domain of Bacteriophage Lambda Integrase: A New Member of Three-stranded $\beta-sheet$ DNA-binding Proteins

  • Cho Eun Hee
    • Proceedings of the Microbiological Society of Korea Conference
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    • 2002.10a
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    • pp.159-161
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    • 2002
  • Bacteriophage lambda integrase carries out the site-specific recombination of lambda. Integrase contains two DNA binding domains with distinct sequence specificity, namely arm-type binding and core-type binding domains. The amino-terminal arm-binding domain is structurally related to the three-stranded $\beta-sheet$ family of DNA-binding domains. Integrase binding to the high affinity arm-type site by the amino-terminal domain facilitates Int binding to the low affinity core-type site, where the cleavage and strand exchange occurs. The amino-terminal domain of Int also modulates the core-binding and catalysis through intramolecular domain-domain interaction and/or intermolecular interactions between Int monomers. In addition, the amino-terminal domain interacts cooperatively with excisionase during excision. This indicates that amino-terminal domain of Int plays an important role in formation of proper higher-order nucleoprotein structure required for lambda site-specific recombination.

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Dynamic simulation models for seismic behavior of soil systems - Part I: Block diagrams

  • Sahin, Abdurrahman
    • Geomechanics and Engineering
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    • v.9 no.2
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    • pp.145-167
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    • 2015
  • Digital simulation has recently become the preferred method for designing complex and dynamic systems. Simulation packages provide interactive, block-diagram environment for modeling and simulating dynamic models. The block diagrams in simulation models are flowcharts which describe the components of dynamic systems and their interaction. This paper is the first part of the study for determining the seismic behavior of soil systems. The aim of this part is to present the constructed block diagrams for discrete-time analysis of seismic site amplification in layered media for vertically propagating shear waves. Detailed block diagrams are constructed for single and multiple soil layers by considering wave propagation with and without damping, respectively. The block diagrams for recursive filter to model attenuation in discrete-time form are also constructed. Finite difference method is used for strain calculation. The block diagrams are developed by utilizing Simulink which is a software add-on to Matlab.

Comparative Analysis of CCR2 and CCR5 Binding Sites to Facilitate the Development of Dual Antagonists: An in Silico Study

  • Kothandan, Gugan
    • Journal of Integrative Natural Science
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    • v.5 no.1
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    • pp.22-26
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    • 2012
  • Chemokine receptor antagonists have potential applications in field of drug discovery. Although the chemokine receptors are G-protein-coupled receptors, their cognate ligands are small proteins (8 to 12 kDa), and so inhibiting the ligand/receptor interaction has been challenging. In particular, CCR2 and CCR5 and their ligands have been implicated in the pathophysiology of a number of diseases, including rheumatoid arthritis and multiple sclerosis. Based on their roles in disease, they have been attractive targets for the pharmaceutical industry, targeting both CCR2 and CCR5 could be a useful strategy. Because of the importance of these receptors, providing information regarding the binding site is of prime importance. Herein, we report the comparison of CCR2 of CCR5 binding sites both sequentially as well as structurally. We also urged the importance of crucial residues in the binding site, to facilitate the development of dual antagonists targeting both the receptors. These results could also be useful for the design of novel and potent dual CCR2 and CCR5 antagonists using structure based drug design.

Enhanced plasticity in a bulk amorphous matrix composite

  • Lee, Jae-Chul;Kim, Yu-Chan;Ahn, Jae-Pyoung;Kim, Hyoung-Seop
    • Proceedings of the Korean Society For Composite Materials Conference
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    • 2003.10a
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    • pp.54-54
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    • 2003
  • We have developed a Cu-based bulk amorphous composite reinforced with a micron-sized crystalline phase, the (Cu60Zr30Ti10)95Ta5 amorphous matrix composite. The composite demonstrates the ultimate strength of 2332 MPa with a dramatically enhanced fracture strain of 15.3 %. Macroscopic observation of the fractured (Cu60Zr30Ti10)95Ta5 amorphous matrix composite showed the development of multiple shear bands along with numerous branching and deflection of shear bands. Microscopic observation on the amorphous matrix of the composite showed that cracks propagate through the residual amorphous matrix located between nanocrystallites, which had formed during deformation. Simulations based on finite element method were conducted to understand the formation mechanisms of multiple shear bands, the initiation site of shear bands, and interaction of shear bands with crystalline particles. Other microscopic fracture mechanism responsible for the enhanced plasticity was discussed.

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Seismic performance of reinforced concrete shear wall buildings with underground stories

  • Saad, George;Najjar, Shadi;Saddik, Freddy
    • Earthquakes and Structures
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    • v.10 no.4
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    • pp.965-988
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    • 2016
  • This paper investigates the seismic behavior of reinforced concrete shear wall buildings with multiple underground stories. A base-case where the buildings are modeled with a fixed condition at ground level is adopted, and then the number of basements is incrementally increased to evaluate changes in performance. Two subsurface site conditions, corresponding to very dense sands and medium dense sands, are used for the analysis. In addition, three ground shaking levels are used in the study. Results of the study indicated that while the common design practice of cropping the structure at the ground surface leads to conservative estimation of the base shear for taller and less rigid structures; it results in unpredicted and nonconservative trends for shorter and stiffer structures.