• Bulletin of the Korean Chemical Society
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• 제16권10호
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• pp.915-923
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• 1995

The parameters for an empirical net atomic charge calculation method, Modified Partial Equalization of Orbital Electronegativity (MPEOE), were determined for the atoms in organosilicon compounds and zeolites. For the organosilicon family, the empirical parameters were determined by introducing both experimental and ab initio observables as constraints, these are the experimental and ab initio dipole moments, and the ab initio electrostatic potential of the organosilicon molecules. The Mulliken population was also introduced though it is not a quantum mechanical observable. For the parameter optimization of the atoms in the aluminosilicates, the dipole moments and the electrostatic potentials which calculated from the 6-31G** ab initio wave function were used as constraints. The empirically calculated atomic charges of the organosilicons could reproduce both the experimental and the ab inito dipole moments well. The empirical atomic charges of the aluminosilicates could reproduce the ab initio electrostatic potentials well also.

• Nuclear Engineering and Technology
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• 제34권2호
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• pp.154-164
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• 2002

Neutron cross section data on Dy-160, Dy-161, Dy-162, Dy-163 and Dy-164 were calculated and evaluated in the energy range of 1 keV to 20 MeV using a spherical optical model, statistical model and pre-equilibrium model. The energy dependent optical model potential parameters were obtained based on the recent experimental data. The width fluctuation correction in Hauser-Feshbach particle decay and the quantum mechanical approach in pre-equilibrium analysis were introduced and gave a better cross section calculation in EMPIRE-II. The total, elastic scattering and threshold reaction cross sections were evaluated and compared with the evaluated files. The model calculated (n, tot), (n, ${\gamma}$) and (n, p) cross sections were in good agreement with the experimental data in the measured energy range. The results will be applied to ENDF/B-VI for data improvement.

• Bulletin of the Korean Chemical Society
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• 제15권5호
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• pp.357-360
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• 1994

The adsorption of cyanide ion on the gold electrode has been investigated by the subtractively normalized interfacial Fourier transform infrared spectroscopy (SNIFTIRS). The observations made by SNIFTIRS were consistent with those obtained by the polarization modulated Fourier transform infrared spectroscopy. According to the surface selection rule, cyanide ion appeared to adsorb on gold via either carbon or nitrogen lone pair electrons assuming a perpendicular orientation with respect to the metal surface. The possibility of presence of bridge-bound species seemed very infeasible. From the ab initio quantum mechanical calculation, adsorbate-to-metal bonding appeared to occur mainly via the $5{\sigma}$ donation from carbon to Au.

• Bulletin of the Korean Chemical Society
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• 제23권2호
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• pp.195-200
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• 2002

Fluorescence excitation spectrum of the trans.trans-1,3,5,7-octatetraene(OT)-Xe van der Waals clusters formed in supersonic jet expansions has been obtained. The transition lines corresponding to the van der Waals cluters of OT with Xe are observed in the lower frequency side of the OT band origin. Based on the spectral shifts, fluorescence lifetimes, and concentration dependence of the peak intensities, most of the transition lines are assigned to the $OT-Xe_n$ (n = 1, 2, 3, 4) clusters. Long progressions of a van der Waals vibrational mode are observed for n = 1, 2, 3 and 4 clusters and assigned to rocking of the OT moiety with respect to the Xe atom with the help of ab initio quantum mechanical calculation.

• Bulletin of the Korean Chemical Society
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• 제30권12호
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• pp.2973-2978
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• 2009

The decomposition reaction mechanism of $CH_3CF_2O$ radical formed from hydroflurocarbon, $CH_3CHF_2$ (HFC-152a) in the atmosphere has been investigated using ab-initio quantum mechanical methods. The geometries of the reactant, products and transition states involved in the decomposition pathways have been optimized and characterized at DFT-B3LYP and MP2 levels of theories using 6-311++G(d,p) basis set. Calculations have been carried out to observe the effect of basis sets on the optimized geometries of species involved. Single point energy calculations have been performed at QCISD(T) and CCSD(T) level of theories. Out of the two prominent decomposition channels considered viz., C-C bond scission and F-elimination, C-C bond scission is found to be the dominant path involving a barrier height of 12.3 kcal/mol whereas the F-elimination path involves that of a 28.0 kcal/mol. Using transition-state theory, rate constant for the most dominant decomposition pathway viz., C-C bond scission is calculated at 298 K and found to be 1.3 ${\times}$ 10$^4s{-1}$. Transition states are searched on the potential energy surfaces involving both decomposition channels and each of the transition states are characterized. The existence of transition states on the corresponding potential energy surface are ascertained by performing Intrinsic Reaction Coordinate (IRC) calculation.

• Bulletin of the Korean Chemical Society
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• 제14권4호
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• pp.491-496
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• 1993

A class A ${\beta}$-lactamase from Staphylococcus aureus PC1 complexed with 3R,5R-clavulanate is studied. The starting geometry for the computation is the crystal structure of the ${\beta}$-lactamase. Docking of the clavulanate to the enzyme is done exploiting the requirements of electrostatic and shape complementarity between the enzyme and clavulanate. This structure is then hydrated by water molecules and refined by energy minimization and short molecular dynamics simulation. In the energy refined structure of this complex, the carboxyl group of the clavulanate is hydrogen bonded to Lys-234, and the the carbonyl carbon atom of the clavulanate is adjacent to the $O_{\gamma}$ of Ser-70. It is found that a crystallographic water molecule initially located at the oxyanion hole, which is formed by the two -NH group of Ser-70 and Gln-237, is replaced by the carbonyl oxygen atom of the 3R,5R-clavulanate after docking and energy reginement. The crystallographic water molecules are proved to be important in ligand binding. Glu-166 residue is found to be repulsive to the binding of clavulanate, which is in agreement with experimental observation. Arg-244 residue is found to be important to the binding of clavulanate as well as to interaction with C2 side chain of the clavulanate. The electron density redistribution of the clavulanate on binding to the ${\beta}$-lactamase in studied by an ab initio quantum-mechanical calculation. A significant redistribution of electron density of the clavulanate is induced by the enzyme, toward the enzyme, toward the transition state of the enzymatic reaction.

• Journal of the Korean Wood Science and Technology
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• 제47권4호
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• pp.442-450
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• 2019

Despite its potential as a renewable source for fuels and chemicals, lignin valorization still faces technical challenges in many aspects. Overcoming such challenges associated with the chemical recalcitrance of lignin can provide many opportunities to innovate existing and emerging biorefineries. In this work, we leveraged a biomass genetic engineering technology to produce phenolic aldehyde-rich lignin structure via downregulation of cinnamyl alcohol dehydrogenase (CAD). The structurally altered lignin obtained from the Arabidopsis thaliana CAD mutant was pyrolyzed to understand the effect of structural alteration on thermal behavior of lignin. The pyrolysis was conducted at 400 and $500^{\circ}C$ using an analytical pyrolyzer connected with GC/MS and the products were systematically analyzed. The results indicate that aldehyde-rich lignin undergoes fragmentation reaction during pyrolysis forming a considerable amount of C6 units. Also, it was speculated that highly reactive phenolic aldehydes facilitate secondary repolymerization reaction as described by the lower yield of overall phenolic compounds compared to wild type (WT) lignin. Quantum mechanical calculation clearly shows the higher electrophilicity of transgenic lignin than that of WT, which could promote both fragmentation and recondensation reactions. This work provides mechanistic insights toward biomass genetic engineering and its application to the pyrolysis allowing to establish sustainable biorefinery in the future.

• 한국자기공명학회논문지
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• 제25권2호
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• pp.24-32
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• 2021

Two new sesterterpenes, including a known sesterterpene, were isolated from the marine sponge Haliclona sp. collected in the Gageo island, Korea. One of the new sesterterpenes (1) was an unusual compound possessing a spiroketal moiety and the other (2) represented a four ring-fused skeleton. The planar structure of compound 1 was identical to gombaspiroketals A and B isolated from the marine sponge Clathria gombawuiensis, but the configuration for the two chiral centers was different each other. On the other hand, the skeletal structure of compound 2 was similar to that of phorone A isolated from Phorbas sp. and a compound from C. gombawuiensis, except for one configuration at C-8. However, in comparing the ¹H and ¹³C NMR spectral data, the proton and carbon chemical shifts for the three compounds were almost consistent. The NOESY spectrum revealed that the C-8 configuration of 2 was reversed to that of the two reported compounds. The configuration for compound 2 was supported by quantum mechanical calculation for the carbon chemical shifts and DP4+ probability for the protons and carbons of 2.

• 한국습지학회지
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• 제20권3호
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• pp.263-271
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• 2018

생활 하수 및 농축산 폐수를 통한 하천으로의 다량의 질소와 인의 유입은 부영양화를 초래하여 하천 자정작용에 악영향을 끼친다. 본 연구에서는 컬럼 실험을 통한 흡착제(활성탄, 제올라이트, 여과사)의 여재층 높이에 따른 암모니아성 질소, 인산염 제거특성을 분석하고, 밀도범함수이론(density functional theory, DFT)를 바탕으로 한 양자역학적 전산 모사를 통해 흡착제와 암모니아성질소($NH_4{^{+}}$)와 인산염($PO_4{^{3-}}$)에 대한 화학적 흡착 거동을 분석하였다. 컬럼 실험 결과, 암모니아성 질소에 대한 제거효율은 제올라이트(95.1%)>활성탄(65.8%)>여과사(10.7%), 인산염의 제거효율은 활성탄(99.6%)>제올라이트(18.8%)>여과사(10.9%) 순으로 나타났다. 제올라이트의 경우, 여재층의 높이에 관계없이 90%이상의 암모니아성 질소에 대한 높은 흡착력을 가졌고, 활성탄의 경우 여재층의 높이가 증가할수록 인과 질소에 대한 높은 흡착효율을 가졌다. DFT를 이용한 흡착제(산화 알루미늄, 활성탄, 여과사)와 영양염류($PO_4{^{3-}}$, $NH_4{^{+}}$)에 대한 흡착거동 분석결과, 제올라이트는 암모니아성 질소($NH_4{^{+}}$)에 대한 높은 흡착에너지(-6.43 eV)를 가졌다. 활성탄의 경우 여과사보다 좁은 HOMO-LUMO 밴드갭을 가져, 전자 이동에 유리한 환경을 조성하여 높은 흡착에너지(-7.10eV)로 영양염류가 제거되는 것을 확인할 수 있었다.

• 한국수소및신에너지학회논문집
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• 제15권2호
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• pp.108-118
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• 2004

To find out rational design and synthetic strategies toward efficient hydrogen storage materials, molecular modeling and quantum mechanical studies have been carried out on the MOFs(Metal-Organic Frameworks) having various organic linkers and nanocube frameworks. The calculation results about the free volume ratio, surface area, and electron density variation of the frameworks indicated that the capacity of the hydrogen storage of MOFs was largely dependent on the specific surface area and electron localization around benzene ring rather than the free volume of MOFs. The prediction of the modeling study could be supported by the hydrogen adsorption experiments using IRMOF-1 and -3, which showed more enhanced hydrogen storage capacities of IRMOF-3 compared with the IRMOF-1's at both experimental conditions, 77K, ∠ $H_2$ 1 atm and ambient temperature, ∠ $H_2$ 35 atm.