• 한국해양공학회지
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• 제23권6호
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• pp.32-38
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• 2009

An FMEA for the waterjet-lifter of a DSNM is performed to prevent the occurrence of device failure. A waterjet-lifter raises and transports manganese nodules from the deep-sea floor up to a somewhat elevated place, from which a pin-scraper transports the lifted nodules to the inner space of the DSNM. A concept design for a device using the axiomatic design methodology is shown as the mapping between the functional domain and physical domain. The FMEA for a DSNM is introduced briefly and the rating criteria of severity, occurrence, and detection for the DSNM are defined. The FMEA of the functional requirements of a DSNM device is accomplished. Three kinds of failure modes, as well as their effects and causes, are predicted. Current design control methods for detecting potential failures, such as physical or computational experiments, design confirmation, and mathematical calculation, are described and the recommended actions for several significant causes are suggested.

• Environmental Analysis Health and Toxicology
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• 제17권1호
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• pp.73-80
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• 2002

Pyruvate dehydrogenase phosphatase (PDP)와 kinase는 당대사시 해당과정에서의 대사 산물인 pyruvate를 acetyl CoA로 만들어 구연산 회로로 진입시켜 주는 효소인 pyruvate dehydrogenase complex (PDC)의 활성을 조절하는 중요한 효소이다. PDP의 catalytic subunit는 PDC의 dihydrolipoamide acetyltransferase (E2), PDP regulatory subunit (PDPr), 그리고 칼슘 결합 도메인 등으로 구성되어 있는 것으로 추측되어지고 있다. 본 연구에서는 그 구조와 기능과의 상관관계를 알아보기 위해 PDPc를 E. coli JM101에서 발현시켜 순수 정제 후 단백분해 효소를 이용한 제한적 가수분해 방법을 이용해 그 구조와 기능과의 상관관계에 대해 연구하고자 하였다 정제된 PDPc는 trypsin, chymotrypsin, Arg-C 그리고 elastase를 이용하여 3$0^{\circ}C$ 그리고 pH 7.0에서 제한적으로 분해시켰으며 각 분해산물의 아미노 말단의 아미노산 배열을 분석하였다. 그 결과 PDPc는 trypsin, chymotrypsin, elastase에 의해 N-terminal의 50 kD과 C-terminal의 10 kD의 두개의 분해산물을 만들었으며, Arg-C에 의해 50kD의 분해산물은 약 35kD와 15kD으로 더 가수분해가 되었다. 이러한 결과로 볼 때 PDPc는 앞에서 추측한데로 세개의 주요한 기능적 도메인으로 이루어져 있음을 알 수 있었다 또한 C-terminal의 10kD은 PDPc의 활성에는 영향을 주지 않는 것으로 밝혀졌으나 다른 도메인의 기능은 더 연구가 되어져야 할 것으로 생각된다.

• Journal of Information Processing Systems
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• 제8권3호
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• pp.459-470
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• 2012

Recently, high-throughput technologies such as the two-hybrid system, protein chip, Mass Spectrometry, and the phage display have furnished a lot of data on protein-protein interactions (PPIs), but the data has not been accurate so far and the quantity has also been limited. In this respect, computational techniques for the prediction and validation of PPIs have been developed. However, existing computational methods do not take into account the fact that a PPI is actually originated from the interactions of domains that each protein contains. So, in this work, the information on domain modules of individual proteins has been employed in order to find out the protein interaction relationship. The system developed here, WASPI (Web-based Assistant System for Protein-protein interaction Inference), has been implemented to provide many functional insights into the protein interactions and their domains. To achieve those objectives, several preprocessing steps have been taken. First, the domain module information of interacting proteins was extracted by taking advantage of the InterPro database, which includes protein families, domains, and functional sites. The InterProScan program was used in this preprocess. Second, the homology comparison with the GO (Gene Ontology) and COG (Clusters of Orthologous Groups) with an E-value of $10^{-5}$, $10^{-3}$ respectively, was employed to obtain the information on the function and annotation of each interacting protein of a secondary PPI database in the WASPI. The BLAST program was utilized for the homology comparison.

• 한국철도학회논문집
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• 제13권3호
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• pp.264-270
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• 2010

본 연구에서는 역사 내 철도 안전 감시 시스템의 최적 디스플레이 설계를 위하여 생태학적 인터페이스 디자인(EID, Ecological Interface Design) 프레임웍을 적용하였다. 특히, EID 개발을 위한 가장 선행적 연구인 작업 영역 분석(WDA, Work Domain Analysis)을 실시하였다. 먼저 WDA를 위한 시스템 경계를 도시철도의 역사 내 안전 감시 시스템으로 설정하고, Abstraction Hierarchy (AH)를 이용하여 역무원의 작업 환경을 분석하였다. AH 결과 역무원이 작업 환경에서 얻게 되는 정보의 흐름을 다섯 단계의 수준(Functional Purpose, Values and Priority Measures, Purpose-related Functions, Object-related Process, Physical Object)으로 전개할 수 있었고, 각각의 수준의 정보로 이루어진 작업 영역 모델(WDM, Work Domain Model)을 얻었다. 이 WDM이 도시철도 안전 감시 시스템의 작업 환경을 얼마나 반영하는지 평가하기 위하여 10년 이상의 역무실 직무 경험이 있는 전문가를 대상으로 Scenario Mapping법을 실시하였다. 평가된 WDM을 바탕으로 현재 역사 내 안전 감시 시스템이 제공하고 있는 정보는 물론이고, 현재 안전 감시 시스템이 제공해주고 있지 못하는 13개의 요구 정보를 추가로 추출하였다. 이렇게 추출된 요구 정보는 도시철도 안전 감시 시스템의 EID에 반드시 반영되어야 할 필수적인 정보로 활용될 수 있다.

• 한국전산구조공학회논문집
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• 제22권2호
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• pp.153-161
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• 2009

재료 비선형성을 갖는 열탄점소성 손상 문제와 경계 비선형성을 갖는 접촉 문제의 효율적인 해석을 위하여 열탄성 부영역, 열탄점소성/손상 부영역, 공유면, 접촉 공유면에 기반을 둔 영역/경계 분할법을 제안하였다. 대변형과 같은 지하학적 비선형성은 고려하지 않았으며, 영역 및 경계 분할에 관련된 공유면 및 접촉 공유면에서의 연속 구속 조건을 처리하기 위하여 간단한 벌칙 함수 기법을 적용하였다. 결과적으로 재료 및 경계 비선형성은 소수의 부영역과 접촉 경계면에서 계산되는 유한요소 행렬들에 국한된다. 따라서 적절한 해석 알고리듬을 구성하면 대폭적인 효율성 향상이 가능하게 된다. 간단한 수치 실험을 통해서 열탄점소성 손상 및 접촉 해석의 효율성에 관련된 기본적인 특성을 분석하였다.

• BMB Reports
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• 제45권6호
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• pp.360-364
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• 2012

Uptake of circulating glucose into the cells happens via the insulin-mediated signalling pathway, which translocates the glucose transporter 4 (GLUT4) vesicles from the intracellular compartment to the plasma membrane. Rab GTPases are involved in this vesicle trafficking, where Rab GTPases-activating proteins (RabGAP) enhance the GTP to GDP hydrolysis. TBC1D4 (AS160) and TBC1D1 are functional RabGAPs in the adipocytes and the skeletonal myocytes, respectively. These proteins contain two phosphotyrosine-binding domains (PTBs) at the amino-terminus of the catalytic RabGAP domain. The second PTB has been shown to interact with the cytoplasmic region of the insulin-regulated aminopeptidase (IRAP) of the GLUT4 vesicle. In this study, we quantitatively measured the ${\sim}{\mu}M$ affinity ($K_D$) between TBC1D4 PTB and IRAP using isothermal titration calorimetry, and further showed that IRAP residues 1-49 are the major region mediating this interaction. We also demonstrated that the IRAP residues 1-15 are necessary but not sufficient for the PTB interaction.

• Journal of Microbiology and Biotechnology
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• 제19권2호
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• pp.121-127
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• 2009

Sequencing analysis of a 5-kb DNA fragment from Streptomyces venezuelae ATCC 15439 revealed the presence of one 3.1-kb open reading frame(ORF), designated as afsR-sv. The deduced product of afsR-sv(1,056 aa) was found to have high homology with the global regulatory protein AfsR. Homology-based analysis showed that aftR-sv represents a transcriptional activator belonging to the Streptomyces antibiotic regulatory protein(SARP) family that includes an N-terminal SARP domain containing a bacterial transcriptional activation domain(BTAD), an NB-ARC domain, and a C-terminal tetratricopeptide repeat domain. Gene expression analysis by reverse transcriptase PCR(RT-PCR) demonstrated the activation of transcription of genes belonging to pikromycin production, when aftR-sv was overexpressed in S. venezuelae. Heterologous expression of the aftR-sv in different Streptomyces strains resulted in increased production of the respective antibiotics, suggesting that afsR-sv is a positive regulator of antibiotics biosynthesis.

• 한국초등과학교육학회지:초등과학교육
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• 제25권2호
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• pp.149-158
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• 2006

The purpose of this study was to analyze the analogies used in elementary science textbooks. For this, the analogies were classified into the following criteria : analogy-related contents included in elementary science text-books, types of representation style, and the role of analogy. The results of this study were as follows : the total of analogies was 154 in the 6th and 166 in the 7th curriculum. Most of them were expressed in textbooks and experimental texts. More structural/functional, verbal/pictorial, concrete/concrete, concrete/abstract, simple and enriched analogies were included in the science textbooks of the 7th than those of the 6th. Most of them took the role as an aid to understanding. According to the domain of science content, energy, material, life domains were increased in the 7th than the 6th, with the exception of the earth science domain. The ratio of used analogies in the life domain was higher than the others, and in the material domain it was the lowest. From these results, it can be said that, in order to help students' understanding, further research into the application of analogies is needed.

• BMB Reports
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• 제44권6호
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• pp.375-380
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• 2011

Bacillus licheniformis SK-1 naturally produces chitinase 72 (CHI72) with two truncation derivatives at the C-terminus, one with deletion of the chitin binding domain (ChBD), and the other with deletions of both fibronectin type III domain (FnIIID) and ChBD. We constructed deletions mutants of CHI72 with deletion of ChBD (CHI72${\Delta}$ChBD) and deletions of both FnIIID and ChBD (CHI72${\Delta}$FnIIID${\Delta}$ChBD), and studied their activity on soluble, amorphous and crystalline substrates. Interestingly, when equivalent amount of specific activity of each enzyme on soluble substrate was used, the product yield from CHI72-${\Delta}$ChBD and CHI72${\Delta}$FnIIID${\Delta}$ChBD on colloidal chitin was 2.5 and 1.6 fold higher than CHI72, respectively. In contrast, the product yield from CHI72${\Delta}$ChBD and CHI72${\Delta}$FnIIID-${\Delta}$ChBD on ${\beta}$-chitin reduced to 0.7 and 0.5 fold of CHI72, respectively. These results suggest that CHI72 can modulate its substrate specificities through truncations of the functional domains at the C-terminus, producing a mixture of enzymes with elevated efficiency of hydrolysis.

• Genomics & Informatics
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• 제16권4호
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• pp.23.1-23.5
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• 2018

Virus taxonomy was initially determined by clinical experiments based on phenotype. However, with the development of sequence analysis methods, genotype-based classification was also applied. With the development of genome sequence analysis technology, there is an increasing demand for virus taxonomy to be extended from in vivo and in vitro to in silico. In this study, we verified the consistency of the current International Committee on Taxonomy of Viruses taxonomy using an in silico approach, aiming to identify the specific sequence for each virus. We applied this approach to norovirus in Caliciviridae, which causes 90% of gastroenteritis cases worldwide. First, based on the dogma "protein structure determines its function," we hypothesized that the specific sequence can be identified by the specific structure. Firstly, we extracted the coding region (CDS). Secondly, the CDS protein sequences of each genus were annotated by the conserved domain database (CDD) search. Finally, the conserved domains of each genus in Caliciviridae are classified by RPS-BLAST with CDD. The analysis result is that Caliciviridae has sequences including RNA helicase in common. In case of Norovirus, Calicivirus coat protein C terminal and viral polyprotein N-terminal appears as a specific domain in Caliciviridae. It does not include in the other genera in Caliciviridae. If this method is utilized to detect specific conserved domains, it can be used as classification keywords based on protein functional structure. After determining the specific protein domains, the specific protein domain sequences would be converted to gene sequences. This sequences would be re-used one of viral bio-marks.