• 제목/요약/키워드: secondary structure modeling.

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Grouping effect on the seismic response of cabinet facility considering primary-secondary structure interaction

  • Salman, Kashif;Tran, Thanh-Tuan;Kim, Dookie
    • Nuclear Engineering and Technology
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    • 제52권6호
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    • pp.1318-1326
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    • 2020
  • Structural modification in the electrical cabinet is investigated by a proposed procedure that comprises of an experimental, analytical and numerical solution. This research emphasizes the linear dynamic analysis of the cabinet that is studied under the seismic excitation to demonstrate the real behavior of the cabinets in NPP. To this end, an actual electric cabinet is experimentally tested using an impact hammer test which reveals the fundamental parameters of the cabinet. The Frequency-domain decomposition (FDD) method is used to extract the dynamic properties of the cabinet from the experiment which is then used for numerical modeling. To validate the dynamic properties of the cabinet an analytical solution is suggested. The calibrated model is analyzed under the floor response obtained from the Connecticut nuclear power plant structure excited by Tabas 1978 (Mw 7.4) earthquake. Eventually, the grouping effect of the cabinets is proposed which represents the influence on the dynamic modification. This grouping of the cabinets is described more sophisticatedly by the theoretical understating, which results in a significant change in the seismic response. Considering the grouping effects will be helpful in the assessment of the real seismic behavior, design, and performance of cabinets.

In silico detection and characterization of novel virulence proteins of the emerging poultry pathogen Gallibacterium anatis

  • L. G. T. G. Rajapaksha;C. W. R. Gunasekara;P. S. de Alwis
    • Genomics & Informatics
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    • 제20권4호
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    • pp.41.1-41.9
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    • 2022
  • The pathogen Gallibacterium anatis has caused heavy economic losses for commercial poultry farms around the world. However, despite its importance, the functions of its hypothetical proteins (HPs) have been poorly characterized. The present study analyzed the functions and structures of HPs obtained from Gallibacterium anatis (NCTC11413) using various bioinformatics tools. Initially, all the functions of HPs were predicted using the VICMpred tool, and the physicochemical properties of the identified virulence proteins were then analyzed using Expasy's ProtParam server. A virulence protein (WP_013745346.1) that can act as a potential drug target was further analyzed for its secondary structure, followed by homology modeling and three-dimensional (3D) structure determination using the Swiss-Model and Phyre2 servers. The quality assessment and validation of the 3D model were conducted using ERRAT, Verify3D, and PROCHECK programs. The functional and phylogenetic analysis was conducted using ProFunc, STRING, KEGG servers, and MEGA software. The bioinformatics analysis revealed 201 HPs related to cellular processes (n = 119), metabolism (n = 61), virulence (n = 11), and information/storage molecules (n = 10). Among the virulence proteins, three were detected as drug targets and six as vaccine targets. The characterized virulence protein WP_013745346.1 is proven to be stable, a drug target, and an enzyme related to the citrate cycle in the present pathogen. This enzyme was also found to facilitate other metabolic pathways, the biosynthesis of secondary metabolites, and the biosynthesis of amino acids.

Efficiency of various structural modeling schemes on evaluating seismic performance and fragility of APR1400 containment building

  • Nguyen, Duy-Duan;Thusa, Bidhek;Park, Hyosang;Azad, Md Samdani;Lee, Tae-Hyung
    • Nuclear Engineering and Technology
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    • 제53권8호
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    • pp.2696-2707
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    • 2021
  • The purpose of this study is to investigate the efficiency of various structural modeling schemes for evaluating seismic performances and fragility of the reactor containment building (RCB) structure in the advanced power reactor 1400 (APR1400) nuclear power plant (NPP). Four structural modeling schemes, i.e. lumped-mass stick model (LMSM), solid-based finite element model (Solid FEM), multi-layer shell model (MLSM), and beam-truss model (BTM), are developed to simulate the seismic behaviors of the containment structure. A full three-dimensional finite element model (full 3D FEM) is additionally constructed to verify the previous numerical models. A set of input ground motions with response spectra matching to the US NRC 1.60 design spectrum is generated to perform linear and nonlinear time-history analyses. Floor response spectra (FRS) and floor displacements are obtained at the different elevations of the structure since they are critical outputs for evaluating the seismic vulnerability of RCB and secondary components. The results show that the difference in seismic responses between linear and nonlinear analyses gets larger as an earthquake intensity increases. It is observed that the linear analysis underestimates floor displacements while it overestimates floor accelerations. Moreover, a systematic assessment of the capability and efficiency of each structural model is presented thoroughly. MLSM can be an alternative approach to a full 3D FEM, which is complicated in modeling and extremely time-consuming in dynamic analyses. Specifically, BTM is recommended as the optimal model for evaluating the nonlinear seismic performance of NPP structures. Thereafter, linear and nonlinear BTM are employed in a series of time-history analyses to develop fragility curves of RCB for different damage states. It is shown that the linear analysis underestimates the probability of damage of RCB at a given earthquake intensity when compared to the nonlinear analysis. The nonlinear analysis approach is highly suggested for assessing the vulnerability of NPP structures.

프로판 엔진의 배기 포트에서 탄화수소 산화 예측을 위한 모델링 (Prediction Modeling of Unburned Hydrocarbon Oxidation in the Exhaust Port of a Propane-Fueled SI Engine)

  • 이형승;박종범;최회명;민경덕;김응서
    • 한국자동차공학회논문집
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    • 제8권2호
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    • pp.33-40
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    • 2000
  • In order to investigate the exhaust structure and secondary oxidation of unburned hydrocarbon (HC) in the exhaust port, a numerical simulation was performed with 3-dimensional flow model and oxidation mechanism optimized for port oxidation. To predict the exhaust and oxidation process with consideration of flow, mixing, and temperature, 3-dimensional flow model and HC oxidation model were used with a commercial computational program, STAR-CD. The flow model were with moving grid for valve motion, which could predict the change of flow field with respect to valve lift. Optimization was performed to predict the HC oxidation with temperature range of 1200~1500K, low HC and oxygen concentration, existence of intermediate species, as typical in port oxidation. The constructed model could predict the port oxidation process with oxidation degree of 14~48% according to the engine operation conditions.

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3차원 전고체 전극 구조체 형성, 분석 및 성능 예측 기술 동향 (A Review on 3D Structure Formation, Analysis and Performance Prediction Technique for All-solid-state Electrode and Battery)

  • 박주남;진다희;김도환;배경택;이강택;이용민
    • 전기화학회지
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    • 제22권4호
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    • pp.139-147
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    • 2019
  • 고에너지밀도 대용량 리튬이온전지를 채용한 전기자동차 및 에너지저장시스템에서 발생하고 있는 발화사고로 인해, 고안전성 전고체 리튬이차전지(All-solid-state Lithium Secondary Battery, ALSB)에 대한 연구가 국내외에서 활발히 진행되고 있다. 하지만, 단순히 액체전해질을 고체전해질로만 바꾸는 것이 아니라, 이로 인해 수반되는 전극 및 전지 설계와 해석이 크게 달라진다는 점에서 해결해야 될 이슈들이 산재해 있다. 특히, 전지는 전극 설계에 따라 그 성능이 굉장히 상이함에도 불구하고, 실질적인 전고체 전지 실험 구현의 어려움으로 전고체 전극(All-solid-state Electrode, ASSE) 설계에 따른 성능 차이를 체계적으로 비교 분석하여 최적화하는 연구는 매우 제한적이다. 이를 극복하기 위한 방안으로, 가상의 3차원 전고체 전극 구조체를 형성하고, 형성된 구조체를 바탕으로 다양한 성능 결정 파라미터를 도출하며, 더불어 분석 전극을 포함한 전지의 성능까지 예측할 수 있는 기술을 개발하는 연구가 주목을 받기 시작했다. 본 총설에서는 3차원 전고체 전극 구조체 형성부터 전고체 리튬이차전지의 성능을 예측하는 기술까지 각각의 기술들이 갖고 있는 장단점을 폭넓게 다룰 것이며, 나아가 본 기술이 나아갈 최종적인 목표까지 간략히 기술하고자 한다.

매끄러운 하상-거친 하상의 횡방향 연속구조를 갖는 개수로 흐름의 3차원 수치모의 (3-D Numerical Simulation of Open-Channel Flows over Smooth-Rough Bed Strips)

  • 최성욱;박문형;강형식
    • 대한토목학회논문집
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    • 제26권6B호
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    • pp.573-581
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    • 2006
  • 본 연구에서는 레이놀즈응력모형을 이용하여 매끄러운 하상-거친 하상의 횡방향 연속구조를 갖는 개수로 흐름을 수치모의하였다. 개발된 모형을 이용하여 평균유속 및 난류량을 계산하고 기존의 실험결과와 비교하였다. 그 결과 레이놀즈응력모형이 매끄러운 하상-거친 하상의 횡방향 연속구조를 갖는 개수로 흐름에서의 평균유속과 난류구조를 비교적 유사하게 예측하는 것으로 나타났다. 특히 이차흐름 벡터도를 계산한 결과 매끄러운 하상에서는 상향류가, 거친 하상에서는 하향류가 나타나는 격자형 이차흐름이 발생하였으며, 이와 같은 격자형 이차흐름은 평균유속 및 난류량 분포에 큰 영향을 미치는 것을 확인하였다. 또한 와도 방정식의 각 항을 비교하여 개수로 흐름에서의 이차흐름의 성인(成因)을 분석하였다.

Structure studies of Pulmonary Surfactant Protein B(SP-B(3,4)) by NMR Spectroscopy and Molecular Modeling

  • Kim, Yangmee;Dongha Baek;Kang, Joo-Hyun;Shin, Song-Yub;Hahm, Kyung-Soo
    • 한국자기공명학회논문지
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    • 제5권1호
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    • pp.37-45
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    • 2001
  • Synthetic pulmonary surfactants consisting of a mixture of phospholipids with synthetic peptides based on human surfactant-associated protein SP-B were prepared. These surfactants were analyzed f3r their secondary structures by circular dichroism (CD) spectroscopy and NMR spectroscopy. Two synthetic peptides (SP-B(3), SP-B(4)) combined with the phospholipid mixture displayed significant surfactant properties. The CD spectra showed that the u-helical propensities of the peptides in DPC micelles. In the NMR spectroscopy, the tertiary structures of SP-B(3) show that it has $\alpha$-helical structure from Gln5 to Arg13 in DPC micelle and SP-B(4) show that they have $\alpha$-helical structure from Gln5 to Leu12 in DPC micelle. Based on these structures, truncated peptides originated from SP-B protein, can be designed as effective synthetic surfactants for clinical use.

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Purification and Structural Characterization of Cold Shock Protein from Listeria monocytogenes

  • Lee, Ju-Ho;Jeong, Ki-Woong;Kim, Yang-Mee
    • Bulletin of the Korean Chemical Society
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    • 제33권8호
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    • pp.2508-2512
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    • 2012
  • Cold shock proteins (CSPs) are a family of proteins induced at low temperatures. CSPs bind to single-stranded nucleic acids through the ribonucleoprotein 1 and 2 (RNP 1 and 2) binding motifs. CSPs play an essential role in cold adaptation by regulating transcription and translation via molecular chaperones. The solution nuclear magnetic resonance (NMR) or X-ray crystal structures of several CSPs from various microorganisms have been determined, but structural characteristics of psychrophilic CSPs have not been studied. Therefore, we optimized the purification process to obtain highly pure Lm-Csp and determined the three-dimensional structure model of Lm-Csp by comparative homology modeling using MODELLER on the basis of the solution NMR structure of Bs-CspB. Lm-Csp consists of a ${\beta}$-barrel structure, which includes antiparallel ${\beta}$ strands (G4-N10, F15-I18, V26-H29, A46-D50, and P58-Q64). The template protein, Bs-CspB, shares a similar ${\beta}$ sheet structure and an identical chain fold to Lm-Csp. However, the sheets in Lm-Csp were much shorter than those of Bs-CspB. The Lm-Csp side chains, E2 and R20 form a salt bridge, thus, stabilizing the Lm-Csp structure. To evaluate the contribution of this ionic interaction as well as that of the hydrophobic patch on protein stability, we investigated the secondary structures of wild type and mutant protein (W8, F15, and R20) of Lm-Csp using circular dichroism (CD) spectroscopy. The results showed that solvent-exposed aromatic side chains as well as residues participating in ionic interactions are very important for structural stability. Further studies on the three-dimensional structure and dynamics of Lm-Csp using NMR spectroscopy are required.

Modeling and Vibration Feedback Control of Rotating Tapered Composite Thin-Walled Blade

  • Shim, Jae-Kyung;Sungsoo Na
    • Journal of Mechanical Science and Technology
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    • 제17권3호
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    • pp.380-390
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    • 2003
  • This paper addresses the problem of the modeling and vibration control of tapered rotating blade modeled as thin-walled beams and incorporating damping capabilities. The blade model incorporates non-classical features such as anisotropy, transverse shear, secondary warping and includes the centrifugal and Coriolis force fields. For the rotating blade system, a thorough validation and assessment. of a number of non-classical features including the taper characteristics is accomplished. The damping capabilities are provided by a system of piezoactuators bonded or embedded into the structure and spread over the entire span of the beam. Based on the converse piezoelectric effect, the piezoactuators produce a localized strain field in response to a voltage and consequently, a change of the dynamic response characteristics is induced. A velocity feedback control law relating the piezoelectrically induced transversal bending moment at the beam tip with the appropriately selected kinematical response quantity is used and thebeneficial effects upon the closed-loop dynamic characteristics of the blade are highlighted.

무선 인지 네트워크에서 군집형 데이터 슬롯의 미검출 확률 추정에 기반한 최적 스펙트럼 센싱 구조 (Optimal Spectrum Sensing Framework based on Estimated Miss Detection Probability for Aggregated Data Slots in Cognitive Radio Networks)

  • 우혁;이동준
    • 한국항행학회논문지
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    • 제17권5호
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    • pp.506-515
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    • 2013
  • 무선 인지 네트워크의 많은 연구는 한 번의 스펙트럼 센싱 수행으로 한 개의 데이터 슬롯을 전송하는 프레임 구조에 대하여 연구하였다. 프레임 길이가 짧은 경우, 데이터 전송률이 낮아지는 문제가 있다. 본 논문에서는 한 번의 스펙트럼 센싱 수행으로 다수의 데이터 슬롯을 전송하는 군집형 데이터 슬롯 구조에 대해서 연구한다. 이를 위해서 Chapman-Kolmogorov 방정식을 이용하여 선순위 사용자의 전송 확률을 모델링하고 이를 이용하여 후순위 사용자의 전송률을 최대화하기 위한 최적화 문제를 제시한다. 최적화 문제의 해를 구하여 최적의 스펙트럼 센싱 시간과 데이터 슬롯의 길이와 군집할 데이터 슬롯의 수를 도출한다.