• Genomics & Informatics
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• 제6권2호
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• pp.72-76
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• 2008

Hypoxia-inducible factor $1{\alpha}\;(HIF1{\alpha})$ is a transcription factor that plays a key role in the adaptation of cells to low oxygen stress and oxygen homeostasis. The oxygen-dependent degradation (ODD) domain of $HIF1{\alpha}$ is responsible for the negative regulation of $HIF1{\alpha}$ in normoxia. The interactions of the $HIF1{\alpha}$ ODD domain with partner proteins such as von Hippel-Lindau tumor suppressor (pVHL) and p53 are mediated by two sequence motifs, the N- and C-terminal ODD(NODD and CODD). Multiple sequence alignment with $HIF1{\alpha}$ homologs from human, monkey, pig, rat, mouse, chicken, frog, and zebrafish has demonstrated that the NODD and CODD motifs have noticeably high conservation of the primary sequence across different species and isoforms. In this study, we carried out molecular dynamics simulation of the structure of the $HIF1{\alpha}$ CODD motif in complex with the p53 DNA-binding domain (DBD). The structure reveals specific functional roles of highly conserved residues in the CODD sequence motif of $HIF1{\alpha}$ for the recognition of p53.

• Biodesign
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• 제5권4호
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• pp.136-140
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• 2017

Lam6 is a member of sterol-specific ${\underline{l}ipid$ transfer proteins ${\underline{a}}nchored$ at ${\underline{m}ebrane$ contact sites (LAMs). Lam6 localizes to the ER-mitochondria contact sites by its PH-like domain and the C-terminal transmembrane helix. Here, we purified and crystallized the Lam6 PH-like domain from Saccharomyces cerevisiae. To aid crystallization of the Lam6 PH-like domain, T4 lysozyme was fused to the N-terminus of the Lam6 PH-like domain with a short dipeptide linker, GlySer. The fusion protein was crystallized under the condition of 0.1 M HEPES-HCl pH 7.0, 10% (w/v) PEG 8000, and 0.1 M $Na_3$ Citrate at 293K. X-ray diffraction data of the crystals were collected to $2.4{\AA}$ resolution using synchrotron radiation. The crystals belong to the orthorhombic space group $P2_12_12_1$ with unit cell parameters $a=59.5{\AA}$, $b=60.1{\AA}$, and $c=105.6{\AA}$. The asymmetric unit contains one T4L-Lam6 molecule with a solvent content of 58.7%. The initial attempt to solve the structure by molecular replacement using the T4 lysozyme structure was successful.

• 산업기술연구
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• 제25권B호
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• pp.115-120
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• 2005

Impact seismic wave method is a method for non-destructive testing of concrete structure using of stress wave which is propagate and reflected from internal flaws within concrete structure and external surface. In this study, we performed frequency domain method using impact seismic wave test for safety diagnosis of civil engineering structure. And reflection method which is used for one-dimensional target such as tunnel lining and transmission method are compared with each other.

• 대한기계학회:학술대회논문집
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• 대한기계학회 2001년도 춘계학술대회논문집C
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• pp.531-536
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• 2001

The structural shape optimization is a useful tool for engineers to determine the shape of a structure. During the optimization process, relocations of nodes happen successively. However, excessive movement of nodes often results in the mesh distortion and eventually deteriorates the accuracy of the optimum solution. To overcome this problem, an efficient method for the shape optimization has been developed. The method starts from the design domain which is large enough to hold the possible shape of the structure. The design domain has pre-defined uniform fine meshes. At every cycle, the method judges whether all the elements are inside of the structure or not. Elements inside of the structure are assigned with real material properties, however elements outside of the structure are assigned with nearly zero values. The performance of the method is evaluated through various examples.

• 한국전산구조공학회:학술대회논문집
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• 한국전산구조공학회 2002년도 봄 학술발표회 논문집
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• pp.174-181
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• 2002

The paper presents an effective analytical method for SSI systems which can have separation or sliding at the soil-structure interface. The method is based on a hybrid approach which combines a linear SSI code KIESSI-2D in frequency domain with a commercial finite element package ANSYS to obtain nonlinear dynamic responses in time domain. The method is applied to a 2-D underground box structure which experiences separation and sliding at the soil-structure interface. Material nonlinearity of the concrete structure is also included in the analysis. Effects of the interface conditions are examined and some critical factors affecting the seismic performance of underground structures are identified.

• Bulletin of the Korean Chemical Society
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• 제22권5호
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• pp.507-513
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• 2001

Histones, nuclear proteins that interact with DNA to form nucleosomes, are essential for both the regulation of transcription and the packaging of DNA within chromosomes. The N-terminal domain of histone H4 which contains four acetylation sites at lysines, may play a separate role in chromatin structure from the remainder of the H4 chain. NMR data suggest that H4NTP peptide does have relating disordered structure at physiological pH, however, it has a defined structure at lower pH conditions. The solution structure calculated from NMR data shows a well structured region comprising residues of Val21-Asp24. In addition, our results suggest that the H4NTP prefers an extended backbone conformation at acetylation sites, however, it (especially Lys 12 ) became more defined structures after acetylation for its optimum function.

• KSII Transactions on Internet and Information Systems (TIIS)
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• 제14권9호
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• pp.3745-3761
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• 2020

Low-rank representation methods already achieve many applications in the image reconstruction. However, for high-gradient image patches with rich texture details and strong edge information, it is difficult to find sufficient similar patches. Existing low-rank representation methods usually destroy image critical details and fail to preserve edge structure. In order to promote the performance, a new representation-based image super-resolution reconstruction method is proposed, which combines gradient domain guided image filter with the structure-constrained low-rank representation so as to enhance image details as well as reveal the intrinsic structure of an input image. Firstly, we extract the gradient domain guided filter of each atom in high resolution dictionary in order to acquire high-frequency prior information. Secondly, this prior information is taken as a structure constraint and introduced into the low-rank representation framework to develop a new model so as to maintain the edges of reconstructed image. Thirdly, the approximate optimal solution of the model is solved through alternating direction method of multipliers. After that, experiments are performed and results show that the proposed algorithm has higher performances than conventional state-of-the-art algorithms in both quantitative and qualitative aspects.

• 한국전산구조공학회:학술대회논문집
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• 한국전산구조공학회 2008년도 정기 학술대회
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• pp.14-19
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• 2008

This paper presents dynamic infinite element formulations which have been developed for soil-structure interaction analysis both in frequency and in time domains by the present authors during the past twenty years. Axisymmetric, 2D and 3D layered half-space soil media were considered in the developments. The displacement shape functions of the infinite elements were established using approximate expressions of analytical solutions in frequency domain to represent the characteristics of multiple waves propagating into the unbounded outer domain of the media. The proposed infinite elements were verified using benchmark examples, which showed that the present formulations are very effective for the soil-structure interaction analysis either in frequency or in time domain. Example applications to actual interaction problems are also given to demonstrate the capability and versatility of the present methodology.

• 한국결정학회:학술대회논문집
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• 한국결정학회 2003년도 춘계학술연구발표회
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• pp.17-17
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• 2003

tRNA (m¹ G37) methyltransferase (TrmD) catalyze s the trans for of a methyl group from S-adenosyl-L-methionine (AdoMet) to G/sup 37/ within a subset of bacterial tRNA species, which have a residue G at 36th position. The modified guanosine is adjacent to and 3' of the anticodon and is essential for the maintenance of the correct reading frame during translation. We have determined the first crystal structure of TrmD from Haemophilus influenzae, as a binary complex with either AdoMet or S-adenosyl-L-homocysteine (AdoHcy), as a ternary complex with AdoHcy/phosphate, and as an apo form. The structure indicates that TrmD functions as a dimer (Figure 1). It also suggests the binding mode of G/sup 36/G/sup 37/ in the active site of TrmD and catalytic mechanism. The N-terminal domain has a trefoil knot, in which AdoMet or AdoHcy is bound in a novel, bent conformation. The C-terminal domain shows a structural similarity to DNA binding domain of trp or tot repressor. We propose a plausible model for the TrmD₂-tRNA₂ complex, which provides insights into recognition of the general tRNA structure by TrmD (Figure 2).

• 한국정보통신학회:학술대회논문집
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• 한국정보통신학회 2017년도 추계학술대회
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• pp.614-616
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• 2017

본 논문은 기존의 SC-FDE구조에 기반하여 협대역 재머 대응을 위한 새로운 SC-FDE 구조를 제안한다. 기존의 SC-FDE구조는 협대역 재머가 발생했을 시 높은 전력의 재밍 신호간섭에 의해 시간영역에서의 채널 추정이 어려워지고, 그로인해 데이터 복원 성능이 저하된다. 이러한 문제를 해결하기 위해 협대역 재머가 발생했을 시 채널추정이 가능한 SC-FDE 프레임 구조를 제안한다. 본 논문에서는 주파수영역에서 채널추정이 가능한 변형된 SC-FDE의 구조를 제안하며 그에 따른 성능을 컴퓨터 모의실험을 통해 검증하였다.