• 한국진공학회:학술대회논문집
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• 한국진공학회 2009년도 제38회 동계학술대회 초록집
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• pp.340-340
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• 2010

Various structures of vacancy defects in graphene layers and carbon nanotubes have been reported by high resolution transmission electron microscope (HR-TEM) and those arouse an interest of reconstruction processes of vacancy defects. In this talk, we present reconstruction processes of vacancy defects in a graphene and a carbon nanotube by tight-binding molecular dynamics (TBMD) simulations and by first principles total energy calculations. We found that a structure of a dislocation defect with two pentagon-heptagon (5-7) pairs in graphene becomes more stable than other structures when the number of vacancy units is ten and over. The simulation study of scanning tunneling microscopy reveals that the pentagon-heptagon pair defects perturb the wavefunction of electrons near Fermi level to produce the $\sqrt{3}\;{\times}\;\sqrt{3}$ superlattice pattern, which is in excellent agreement with experiment. It is also observed in our tight-binding molecular dynamics simulation that 5-7 pair defects play a very important role in vacancy reconstruction in a graphene layer and carbon nanotubes.

• 한국자기공명학회논문지
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• 제13권2호
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• pp.143-153
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• 2009

Luteinizing Hormone Releasing Hormone (LHRH) is composed of 10 amino acids, and is best known as a neurotransmitter. Because of the 80% homology in animals, much more concerns have focused on the substances that have similar functions or can control LHRH. Ni, Cu-LHRH complexes were synthesized. The degree of complexation was monitored by $^1H,\;^{13}C$-NMR chemical shifts, and final products were identified by ESI-Mass spectrum. Solution-state structure determination of Ni-LHRH complex was accomplished by using NMR results and NMR-based distance geometry (DG). Interproton distances from nuclear Overhauser effect spectroscopy (NOESY) were utilized for the molecular structure determination. Results were compared with previous structures obtained from energy minimization and other spectroscopic methods. Structure obtained in this study has a cyclic conformation which is similar to that of energy minimized, and exhibits a specific a-helical turn with residue numbers (2~7) out of 10 amino acids. Comparison of chemical shifts and EPR studies of Ni, Cu-LHRH complexes exhibit that Ni-LHRH complex has same binding sites with the 4-coordination mode as in Zn-LHRH complex.

• Journal of Microbiology and Biotechnology
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• 제6권4호
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• pp.250-254
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• 1996

MR-387A [(2S, 3R)-2-hydroxy-3-amino-4-phenylbutanoyl-L-valyl-L-prolyl-(2, 4-trans)- L-4-hydroxy-proline] reversibly inhibits aminopeptidase N (BC 3.4.11.2) in a process that is remarkable for its unusual degree of time dependence. The time required to inactivate the enzyme by 50$%$ ($t_{1/2}$) for establishing steady-state levels of $EI^*$complex was approximately 5 minutes. This indicates that the inhibition is a slow-binding process. In dissociation experiments of $EI^*$ complex, enzymic activity was regained slowly in a quadratic equation, indicating that the inhibition of aminopeptidase N by MR-387A is tight-binding and reversible. Thus, the binding of MR-387A by aminopeptidase N is slow and tight, with $K_{i}$ (for initial collision complex, EI) and $K_i{^*}$ (for final tightened complex, $EI^*$) of $2.2\times10^{-8}$ M (from Lineweaver-Burk plot) and $4.4\times10^{-10}$ M (from rate constants), respectively. These data indicate that MR-387A and aminopeptidase N are bound approximately 200-fold more tightly in the final $EI^*$complex than in the initial collision EI complex.

• The Plant Pathology Journal
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• 제22권2호
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• pp.139-146
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• 2006

The 3' region of Potato virus X (PVX) has the 74 nt 3'-nontranslated region (NTR) that is conserved among all potexviruses and contains several cis-acting elements for minus-strand and plus-strand RNA accumulation. Three stem-loop structures (SL1-SL3), especially formation of SL3 and U-rich sequence of SL2, and near upstream elements in the 3' NTR were previously demonstrated as important cis-acting elements. To Investigate the binding of these cis-acting elements within 3' end with host protein, we used the electrophoretic mobility shift assays (EMSA) and UV-cross linking analysis. The EMSA with cellular extracts from tobacco and RNA transcripts corresponding to the 150 nt of the 3' end of PVX RNA showed that the 3' end of PVX formed complexes with cellular proteins. The specificity of protein binding was confirmed through competition assay by using with 50-fold excess of specific and non-specific probes. We also conducted EMSA with RNAs containing various mutants on those cis-acting elements (${\Delta}10$10, SL3B, SL2A and ${\Delta}21$; J Mol Biol 326, 701-720) required for efficient PVX RNA accumulation. These analyses supported that these cis-acting elements are required for interaction with host protein(s). UV-cross linking analysis revealed that at least three major host proteins of about 28, 32, and 42 kDa in mass bound to these cis-elements. These results indicate that cis-acting elements from 3' end which are important for minus and plus-strand RNA accumulation are also required for host protein binding.

• 고려인삼학회:학술대회논문집
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• 고려인삼학회 1980년도 학술대회지
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• pp.71-76
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• 1980

Aortic strips were prepared from rabbits, and the tensions were maintained by administration of norepinephrine into the incubation chamber. The application of diol or triol induced relaxation of the aortic strip, as indicated by the decreased aortic tension. Triol, in a concentration of $30\;mg\%\;causes\;approximately\;50\%$ of muscle relaxation, whereas a similar degree of relaxation is induced by $50\;mg\%$ of diol. This indicates that both triol and diol cause relaxation of the aorta, but that triol is about $170\%$ more potent than diol. It is well established that blood-vessel smooth-muscle tone is regulated by the available intracellular $Ca^{++}$ concentration, which in turn is profoundly influenced by interaction of the cellular membrane and sarcoplasmic reticulum in the smooth muscle. Thus, any agent which modifies the smooth-muscle tone is expected to interfere with the $Ca^{++}$ binding or uptake of sarcolemma and sarcoplasmic reticulum. In the following experiments sarcoplasmic reticulum and sarcolemma were prepared from the ventricle of rabbit heart, and the active $Ca^{++}$ uptake by these cellular components was measured employing $Ca^{45}$ in the presence of triol and diol. It was found that the active $Ca^{++}$ uptake in the presence of ATP by sarcoplasmic reticulum was inhibited by both triol and diol. Panaxatriol, in a concentration of $80\;mg\;\%,$ inhibited $Ca^{++}$ uptake by $30\%,$ whereas panaxatriol in the same concentration inhibited uptake by $20\%.$ It is clear that triol is a more potent inhibitor of active $Ca^{++}$ transport in sarcoplasmic reticulum than diol. The $Ca^{++}$ binding of the cellular membrane was also studied employing Ca45 and milipore techniques. It was found that triol in a concentration of $80\;mg\;\%,$ decreased $Ca^{++}$ binding by $29\%.$ Diol in the same concentration decreased the binding by $17\%.$ It is clear that both triol and diol inhibit $Ca^{++}$ binding to the cellular membrane, but triol is approximately $180\%$ more potent than diol.

• Molecules and Cells
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• 제45권8호
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• pp.588-602
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• 2022

Various RNA-binding proteins (RBPs) are key components in RNA metabolism and contribute to several neurodevelopmental disorders. To date, only a few of such RBPs have been characterized for their roles in neocortex development. Here, we show that the RBP, Rbms1, is required for radial migration, polarization and differentiation of neuronal progenitors to neurons in the neocortex development. Rbms1 expression is highest in the early development in the developing cortex, with its expression gradually diminishing from embryonic day 13.5 (E13.5) to postnatal day 0 (P0). From in utero electroporation (IUE) experiments when Rbms1 levels are knocked down in neuronal progenitors, their transition from multipolar to bipolar state is delayed and this is accompanied by a delay in radial migration of these cells. Reduced Rbms1 levels in vivo also reduces differentiation as evidenced by a decrease in levels of several differentiation markers, meanwhile having no significant effects on proliferation and cell cycle rates of these cells. As an RNA binding protein, we profiled the RNA binders of Rbms1 by a cross-linked-RIP sequencing assay, followed by quantitative real-time polymerase chain reaction verification and showed that Rbms1 binds and stabilizes the mRNA for Efr3a, a signaling adapter protein. We also demonstrate that ectopic Efr3a can recover the cells from the migration defects due to loss of Rbms1, both in vivo and in vitro migration assays with cultured cells. These imply that one of the functions of Rbms1 involves the stabilization of Efr3a RNA message, required for migration and maturation of neuronal progenitors in radial migration in the developing neocortex.

• Bulletin of the Korean Chemical Society
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• 제32권spc8호
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• pp.3051-3056
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• 2011

We calculate the free energy surfaces for two small proteins and a protein-RNA complex system by using a lattice model approach. In particular, we employ the Munoz-Eaton model, which is a native-structure based statistical mechanical model for studying protein folding problem. The model can provide very useful insights into the folding mechanisms by allowing one to calculate the free energy surfaces efficiently. We first calculate the free energy surfaces of ubiquitin and BBL, using both approximate and recently developed exact solutions of the model. Ubiquitin exhibits a typical two-state folding behavior, while BBL downhill folding in our study. We then extend the method to study of a protein-RNA complex. In particular, we focus on PAZ-siRNA complex. In order to elucidate the interplay between folding and binding kinetics for this system we perform comparative studies of PAZ only, PAZ-siRNA complex and two mutated complexes. We find that folding and binding are strongly coupled with each other and the bound PAZ is more stable than the unbound PAZ. Our results also suggest that the binding sites of the siRNA may serve act as a nucleus in the folding process.

• Bulletin of the Korean Chemical Society
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• 제33권10호
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• pp.3269-3273
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• 2012

In this study, we report a new method for the high contrast imaging of biomolecular interactions at roller printed protein surfaces using thermotropic liquid crystals (LCs). Avidin was roller printed and covalently immobilized onto the obliquely deposited gold surface that was decorated with carboxylic acid-terminated self-assembled monolayers (SAMs). The optical response of LCs on the roller printed film of avidin contrasted sharply with that on the obliquely deposited gold surface. The binding of biotin-peroxidase to the roller printed avidin was then investigated on the obliquely deposited gold substrate. LCs exhibited a non-uniform and random orientation on the roller printed area decorated with the complex of avidin and biotin-peroxidase, while LCs displayed a uniform and planar orientation on the area without roller printed proteins. The orientational transition of LCs from uniform to non-uniform state was triggered by the erasion of nanometer-scale topographies on the roller printed surface after the binding of biotin-peroxidase to the surface-immobilized avidin. The specific binding events of protein-receptor interactions were also confirmed by atomic force microscopy and ellipsometry. These results demonstrate that the roller printing of proteins on obliquely deposited gold substrates could provide a high contrast signal for imaging biomolecular interactions using LC-based sensors.

• Clinical and Experimental Pediatrics
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• 제45권6호
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• pp.796-799
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• 2002

티록신 결합글로불린 결핍증은 대부분 갑상선기능저하증을 동반하지 않으므로 갑상선 호르몬 보충 요법이 필요 없으나 드문 예에서 유리 티록신 농도가 정상치 보다 낮게 유지되고, 중추 신경계에 대한 갑상선 호르몬의 부족에 의해 갑상선 자극호르몬이 정상치 보다 증가하는 경우가 있다. 이런 경우는 티록신 결합글로불린의 결핍 정도가 갑상선기능저하증을 유발할 수 있을 정도로 갑상선 호르몬의 이동과 갑상선 밖의 호르몬 저장에 영향을 주는 것이므로 갑상선호르몬의 보충요법이 필요하게 된다. 저자들은 갑상선기능저하증을 동반하여 갑상선 호르몬의 투여가 필요한 중증의 티록신 결합글로불린 결핍증 1례를 보고하는 바이다.

• Computers and Concrete
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• 제3권6호
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• pp.401-422
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• 2006

A multi-species model based on the Nernst-Planck equation has been developed by using a finite volume method. The model makes it possible to simulate transport due to an electrical field or by diffusion and to predict chloride penetration through water saturated concrete. The model is used in this paper to assess and analyse chloride diffusion coefficients and chloride binding isotherms. The experimental assessment of the effective chloride diffusion coefficient consists in measuring the chloride penetration depth by using a colorimetric method. The effective diffusion coefficient determined numerically allows to correctly reproduce the chloride penetration depth measured experimentally. Then, a new approach for the determination of chloride binding, based on non-steady state diffusion tests, is proposed. The binding isotherm is identified by a numerical inverse method from a single experimental total chloride concentration profile obtained at a given exposure time and from Freundlich's formula. In order to determine the initial pore solution composition (required as initial conditions for the model), the method of Taylor that describes the release of alkalis from cement and alkali sorption by the hydration products is used here. Finally, with these input data, prediction of total and water-soluble chloride concentration profiles has been performed. The method is validated by comparing the results of numerical simulations to experimental results obtained on various types of concretes and under different exposure conditions.