• Journal of the Korean Geosynthetics Society
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• v.5 no.2
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• pp.45-50
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• 2006

Although the discharge capacity of the natural fiber drains are very low compared to that of plastic drain board (PDB), it is found that the conventional fiber drains and the new developed straw drain boards have great potential for use as a substitute for conventional plastic drain boards through several model tests. To verify their field application, a pilot test using environmentally friendly drains is also being carried out to prove their effective discharge capacity in the field. The pilot test site was divided into 5 different areas, with various combinations of vertical and horizontal drains installed for evaluation. Definite characteristics of various drains are still to be found due to the delay in construction of embankment. Consolidation behavior of three types of vertical drains and two types of horizontal drains will be analyzed after the completion of the embankment in the near future.

• Economic and Environmental Geology
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• v.28 no.6
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• pp.635-646
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• 1995

Mineralized zone in the Dongyang talc deposits occurs on the lowest dolomite member of the Hyangsanri Dolomite belonging to the Ogcheon Supergroup. Ore bodies are emplaced as pipe-like body along the axis of minor folds plunging $40^{\circ}$ to the west developed in these dolomite layers. Amphibolite and chlorite schist are found along the upper or lower contact of all ore bodies (Kim et al., 1963; Park and Kim, 1966). Following the recrystallization and silicification of dolomite, tremolite and tabular and leafy talc(I) of the earlier stage formed, and microcrystalline talc(II) formed in the later stage. Talc(l) and tremolite formed by the reaction between dolomite and the fluid. Whereas talc (II) formed by the reaction between dolomite and fluid, or by the reaction between early formed tremolite and fluid. During the early stage of mineralization, the fluid was the $H_2O-CO_2$ system dominant in $CO_2$, In the later stage, the composition of the fluid changed to $H_2O-NaCl-CO_2$system, and finally to the $H_2O-NaCl$ system. The pressure and temperature conditions of the formation of tremolite associated with talc(I) were 1,640~2,530 bar, and $440{\sim}480^{\circ}C$, respectively. The pressure and temperature condition of talc(II) ore formation was 1,400~2,200 bar, and $360{\sim}390^{\circ}C$, respectively. These conditions are much lower than the metamorphic pressure and temperature of the rocks from the Munjuri Formation located about 5 km to the noJ:th of Dongyang talc deposit ${\delta}^{13}C$ and ${\delta}^{18}O$ values of dolomite which is the host rock of the talc ore deposit are 2.9~5.7‰ (PDB), and -7.4~l6.8‰ (PDB), respectively. These values are little higher than those from the Cambro-Ordovician limestones of the Taebaeksan region, but belong to the range of the unaltered sedimentary dolomite. ${\delta}^{18}O$and ${\delta}D$ values of the talc from Dongyang deposit are 8.6~15.8‰ (vs SMOW), and -65~-90‰ (vs SMOW), respectively, belonging to the range of magmatic origin. These values are quite different from those measured in the metamorphic rocks of Munjuri and Kyemyungsan Formation. ${\delta}^{34}S$ value of anhydrite is 22.4‰ (CDT), which is much lower than ${\delta}^{34}S$ (30‰ vs COT) of sulfate of early Paleozoic period, and indicates the possibility of the addition of magmatic sulfur to the system. Talc ores show the textures of weak foliation and well developed crenulation cleavages. Talc ore deposit in the area is concluded as hydrothermal replacement deposit formed before the latest phase of the deformations that Ogcheon Belt has undergone.

• Geotechnical Engineering
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• v.13 no.5
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• pp.45-58
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• 1997

In this paper the factors developing ground disturbance with the penetration of PDB mandrels are analysed by using field reconnaissance and laboratory test. In the laboratory tests, the amount of smear zones around the PDB mandrels is compared with respect to the shape and the size of mandrels by penetrating model mandrels of various shapes into the reconstituted clay. The shapes of mandrels selected are circular, oval and rectangular. It was recognized from the field reconnaissance that the size and shape, driving techniques of mandrels, as well as the size and shape of anchor shoe could develop ground disturbance. The mandrels that would reduce the smear effect of clay is oval and rectangular shapes rat her than circular one. It was found that the smear effect becomes smaller as the ratio of the long and short edge of the rectangular shape mandrel becomes larger.

• Journal of the Korean Magnetic Resonance Society
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• v.20 no.2
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• pp.50-55
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• 2016

Backbone $^1H$, $^{13}C$ and $^{15}N$ resonance assignments are presented for the anticodon binding domain (residues 557-674) of human glycyl-tRNA synthetase (GRS). Role of the anticodon binding domain (ABD) of GRS as an anticancer ligand has recently been reported and its role in other diseases like Charcot-Marie-Tooth (CMT) and polymyositis have increased its interest. NMR assignments were completed using the isotope [$^{13}C/^{15}N$]-enriched protein and chemical shifts based secondary structure analysis with TALOS+ demonstrate similar secondary structure as reported in X-ray structure PDB 2ZT8, except some C-terminal residues. NMR signals from the N-terminal residues 557 to 571 and 590 to 614 showed very weak or no signals exhibiting dynamics or conformational exchange in NMR timescale.

• Journal of Integrative Natural Science
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• v.7 no.3
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• pp.159-165
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• 2014

Pyrazole, hydroxyimino, aldehyde and isoxazole derivatives exhibit a broad spectrum of biological activities such as antimicrobial, anti-inflammatory and antitumor activities. With growing application on their synthesis and bioactivity, chemists and biologists in recent years have considerable attention on the research of these derivatives. In the view of potential importance of these derivatives, we have crystallized few of the derivatives and its report has been published. The present study focuses on docking studies of these derivatives against Phospholipases $A_2$ enzyme. This enzymes has implicated as potential targets for anti-inflammatory drug design. co-crystal structure (PDB ID: 1POE) of $PLA_2$ deposited in Protein Data Bank has been retrieved for docking analysis. Docking studies using Schrodinger's GLIDE reveals that these derivatives shows better binding energy and score in the defined active site. These results may provide a guiding role to design a lead molecule which may reduce inflamation.

• BMB Reports
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• v.40 no.2
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• pp.286-289
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• 2007

Despite considerable interest in the biologic processes of regeneration and stem cell activation, little is known about the genes involved in these transformative events. In a Hydra littoralis model of regeneration, we employed a rapid shotgun suppression subtractive hybridization strategy to identify genes that are uniquely expressed in regenerating tissue. With an adaptor-PCR based technique, 16 candidate transcripts were identified, 15 were confirmed unique to mRNA isolated from hydra undergoing regeneration. Of these, 6 were undescribed in GenBank and allied expressed sequence tag (EST) databases (GenBank + EMBL + DDBJ + PDB and the Hydra EST database). BLAST analysis of these sequences identified remarkably similar sequences in anonymous ESTs found in a wide variety of animal species.

• Proceedings of the Korean Society for Bioinformatics Conference
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• 2005.09a
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• pp.379-382
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• 2005

We demonstrate workflows in biological data retrieval and analysis using the DDBJ Web Service; specifically introduce a workflow for the analysis of proteins or proteomics data sets. The workflow mechanically extracts the gene whose protein structure and function are known from all the genes of a human genome in Ensembl (http://www.ensembl.org/) based on cross-references among Ensembl, Swiss-Prot (http://www.ebi.ac.uk/swissprot) and PDB (Protein Data Bank; http://www.wwpdb.org/). The workflow discovered ‘hidden’ linkages among databases. We will be able to integrate distributed and heterogeneous data systems into workflows, if they are provided based on standards for Web services.

• Proceedings of the Korea Information Processing Society Conference
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• 2002.04a
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• pp.79-82
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• 2002

단백질 3차 구조 정보는 PDB에서 플랫화일 형태로 제공되고 있으며 이러한 플랫화일 각각의 엔트리들은 단백질 3차 분자 구조를 구성하는 원자들의 공간좌표정보, 서열정보, 실험정보 및 참조정보 등으로 구성된다. 이러한 정보들을 포함하고 있는 플랫파일로부터 필수적인 구조정보 및 서열정보 등의 효율적 검색을 위해서는 플랫파일을 데이터베이스로 구축함과 동시에, 구축된 데이터베이스를 위한 유사성 검색시스템 구축이 요구된다. 따라서, 이 논문에서는 Protein DataBank에서 제공하는 플랫파일을 공간객체 모델링기법에 기반한 관계형 데이터베이스로 구축하고 PSI-BLAST를 적용하여 단백질 서열 유사성 검색 시스템을 구축한다. 이렇게 함으로써 단백질 3자 구조 분자를 구성하는 원자에 대한 검색과 구조에 대한 서열 유사성 검색을 통하여 단백질 3차 구조 분류 및 구조 예측 시스템 구축에 활용할 수 있다.

• Journal of Microbiology and Biotechnology
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• v.10 no.5
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• pp.733-736
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• 2000

Since pathogens resistant against vancomycin occur rapidly, the development of a new drug is needed. To make a new drug based on a rational drug design, the structural study of vancomycin is necessary. Accordingly, this study reports on a comparison of the solution structure of vancomycin determined by NMR spectroscopy, which was performed in the present work, with the X-ray crystallographic structure previously deposited in the Protein Data Bank (PDB).

• Bulletin of the Korean Chemical Society
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• v.32 no.4
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• pp.1241-1248
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• 2011

Three dimensional quantitative structure-activity relationships (3D-QSARs) between new thiosemicarbazone analogues (1-31) as a substrate molecule and their inhibitory activity against tyrosinase as a receptor were performed and discussed quantitatively using CoMFA (comparative molecular field analysis) and CoMSIA (comparative molecular similarity indices analysis) methods. According to the optimized CoMSIA 2 model obtained from the above procedure, inhibitory activities were mainly dependent upon H-bond acceptor favored field (36.5%) of substrate molecules. The optimized CoMSIA 2 model, with the sensitivity of the perturbation and the prediction, produced by a progressive scrambling analysis was not dependent on chance correlation. From molecular docking studies, it is supposed that the inhibitory activation of the substrate molecules against tyrosinase (PDB code: 1WX2) would not take place via uncompetitive inhibition forming a chelate between copper atoms in the active site of tyrosinase and thiosemicarbazone moieties of the substrate molecules, but via competitive inhibition based on H-bonding.