• Bulletin of the Korean Chemical Society
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• 제18권1호
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• pp.27-32
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• 1997

The geometries and energies of the isomers in alkyne complexes MCl(PH3)2(η2-C2H2), M=Rh and Ir, are theoretically investigated using ab initio methods at the Hartree-Fock and up to MP4 level of theory and relativistic effective core potentials for Rh and Ir metals. The optimized structures of Rh complexes, 1-3 at MP2/ECP1 level are in good agreement with the related experimental data. The binding energies of C2H2 to d8-metal fragments are computed to be ∼55 kcal/mol. The vinylidene complexes for Rh and Ir metals are calculated to be much lower in energy than the alkyne complexes. The alkyne-vinylidene rearrangement is possible to proceed exothermically through the intermediate hydrido-alkynyl complexes, 2 or 9. Detailed comparison is given about the geometries and relative energies on Rh and Ir isomers at the various level ab initio calculations with orbital analysis.

• BMB Reports
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• 제37권5호
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• pp.533-537
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• 2004

Previously published kinetic data on the interactions of seventeen different enzymes with their physiological substrates are re-examined in order to understand the connection between ground state binding energy and transition state stabilization of the enzyme-catalyzed reactions. When the substrate ground state binding energies are normalized by the substrate molar volumes, binding of the substrate to the enzyme active site may be thought of as an energy concentration interaction; that is, binding of the substrate ground state brings in a certain concentration of energy. When kinetic data of the enzyme/substrate interactions are analyzed from this point of view, the following relationships are discovered: 1) smaller substrates possess more binding energy concentrations than do larger substrates with the effect dropping off exponentially, 2) larger enzymes (relative to substrate size) bind both the ground and transition states more tightly than smaller enzymes, and 3) high substrate ground state binding energy concentration is associated with greater reaction transition state stabilization. It is proposed that these observations are inconsistent with the conventional (Haldane) view of enzyme catalysis and are better reconciled with the shifting specificity model for enzyme catalysis.

• Archives of Pharmacal Research
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• 제10권1호
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• pp.29-35
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• 1987

The effect of drug addition on the bovine serum albumin (BSA)-edible dye complex was studied by spectrophotometric method. The edible dyes tested were amranth, erythrosine, tatrazine and sunset yellow. The moles of bound dye per protein mole and free energies for edible dyes bounded were determined at pH 7.4. The values of free energy change by the addition of drughs to BSA-edible dye were ranged fro -6, 260 to 08030 cal/mole. In the wide range of edible dye concentration (0.3-$7{\times}10^{-5}$$^{-5}$ M), acetylsalicylic acid (ASA) showed pattern of displacement different from that of dye. It was assumed that ASA has different binding mechanisms from edible dye.

• 한국결정성장학회지
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• 제10권3호
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• pp.185-188
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• 2000

CdTe 단결정에서 중성 받게에 구속된 엑시톤 해리를 PL 스펙트럼의 온도의존성을 측정하여 조사하였다. 12 K에서 CdTe 단결정의 자유 엑시톤의 결합 에너지는 10 meV이고,중성받게에 구속된 결합 에너지는 7.17 meV 이며, 또 중성주게에 구속된 결합 에너지는 14 meV이였다. 또한 ($A^{\circ}$, X)의 활성화 에너지의 값으로부터($A^{\circ}$, X)의 해리는 자유 엑시톤에서 해리됨을 알 수 있었다.

• 대한화학회지
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• 제55권6호
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• pp.905-911
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• 2011

[ $C_{60}(CH_2)_nOH$ ](n=0~2)와 $C_{60}(OH)_2$의 가능한 분자구조를 B3LYP/6-311G(d,f) 이론 수준에서 최적화 하였으며, 각 화합물의 가장 안정한 분자구조(global minimum)를 확인하고 결합에너지를 계산하여 구조적 특성에 따른 에너지와의 상호연관성을 고찰하였다. 보다 정확한 상대 에너지를 계산하기 위하여 진동주파수를 계산하여 영점 진동 에너지(zero-point vibrational energy, ZPVE)를 보정하였으며, IR 스펙트럼을 예측하였다. $C_{60}(CH_2)_nOH$ (n=0-2)에서 결합에너지의 경우, $-CH_2OH$기 보다 -OH기가 결합되었을 때 결합에너지가 약 10 kcal/mol 정도 더 안정한 것으로 나타났다.

• 대한화학회지
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• 제53권3호
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• pp.272-278
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• 2009

$Ca^+-(CO)_n$,과 $Ca^+-(CO_2)_n$ (n=1,2) complex에 대한 구조와 결합 에너지를 MP2/6-311++G(2d,p) 방 법과 B3LYP/6-311++G(2d,p) 방법에 의해 계산하였고 vibrational frequencies도 계산하였다. $Ca^+-(CO)_n$의 경우 C-bonded complex와 O-bonded complex가 다 가능함을 보였고, $Ca^+-(CO)_2$에서는 선형과 $C_{2v}$ 형태가 나타남을 볼 수 있었으며 더 안정한 형태는 $C_{2v}$ 구조로 밝혀졌다. $Ca^+-(CO_2)_2$에서도 선형과 $C_{2v}$ 형태를 볼 수 있는데 이 경우는 선형이 근소한 에너지 차이로 더 안정한 것으로 나타났다.

• 대한화학회지
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• 제16권2호
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• pp.59-63
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• 1972

In connection with two electron binding energy of each bond of saturated hydrocarbons, C-C bond fission and hydrogen abstraction from C-H bond are discussed by means of two center Huckel method. A beautiful correlation could be noticed between the observed bond dissociation energy and the calculated bond energy except for n-butane. Bond dissociation energies between C-C bond were also related to C-C bond fission. We could also find a very close relation between the relative easiness of hydrogen abstraction and the calculated binding energy of C-H bond. In other words, C-H bonds of tertiary hydrogen have been noticed as most weakely bonded and hence the tertiary hydrogen would most easily from the paraffins. In addition, the C-H binding energy is discussed applying ionic character of C-H bond which is derived from its dipole moment (0.4D)

• 통합자연과학논문집
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• 제3권1호
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• pp.49-53
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• 2010

Molecular docking is a critical event which mostly forms Van der waals complex in molecular recognition. Since the majority of developed drugs are small molecules, docking them into proteins has been a prime concern in drug discovery community. Since the binding pose space is too vast to cover completely, many search algorithms such as genetic algorithm, Monte Carlo, simulated annealing, distance geometry have been developed. Proper evaluation of the quality of binding is an essential problem. Scoring functions derived from force fields handle the ligand binding prediction with the use of potential energies and sometimes in combination with solvation and entropy contributions. Knowledge-based scoring functions are based on atom pair potentials derived from structural databases. Forces and potentials are collected from known protein-ligand complexes to get a score for their binding affinities (e.g. PME). Empirical scoring functions are derived from training sets of protein-ligand complexes with determined affinity data. Because non of any single scoring function performs generally better than others, some other approaches have been tried. Although numerous scoring functions have been developed to locate the correct binding poses, it still remains a major hurdle to derive an accurate scoring function for general targets. Recently, consensus scoring functions and target specific scoring functions have been studied to overcome the current limitations.

• 한국진공학회:학술대회논문집
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• 한국진공학회 2009년도 제38회 동계학술대회 초록집
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• pp.61-61
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• 2010

In the present work, we present the optimized the hybrid structures of carbon nanotubes (CNTs) and metal nanocomposites including Cu, Al, Co and Ni using the first principle calculations based on the density functional theory. Introduction of CNTs into a metal matrix has been considered to improve the mechanical properties of the metal matrix. However, the binding energy between metals and pristine CNTs wall is known to be so small that the interfacial slip between CNTs and the matrix occurs at a relatively low external stress. The application of defective or functionalized CNTs has thus attracted great attention to enhance the interfacial strength of CNT/metal nanocomposites. Herein, we design the various hybrid structures of the single wall CNT/metal complexes and characterize the interaction between single wall CNTs and various metals such as Cu, Al, Co or Ni. First, differences in the binding energies or electronic structures of the CNT/metal complexes with the topological defects, such as the Stone-Wales and vacancy, are compared. Second, the characteristics of functionalized CNTs with various surface functional groups, such as -O, -COOH, -OH interacting with metals are investigated.We found that the binding energy can be enhanced by the surface functional group including oxygen since the oxygen atom can mediate and reinforce the interaction between carbon and metal. The binding energy is also greatly increased when it is absorbed on the defects of CNTs. These results strongly support the recent experimental work which suggested the oxygen on the interface playing an important role in the excellent mechanical properties of the CNT-Cu composite[1].

• 대한화학회지
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• 제53권5호
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• pp.512-520
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• 2009

본 연구에서는 반응성이 큰 황이 산소와 결합하여 산화황이 되고 이것들이 클러스터를 이루었 을 때의 구조와 결합에너지에 대하여 조사하였다. $S_{n}O_{n},\;S_{n}O_{2n},\;S_{n}O_{3n}\;(n\;=\;1{\sim}4)$까지의 여러 가능한 분자 구조를 B3LYP/6-311G** 이론수준까지 최적화 하였으며, 단량체($SO,\;SO_2,\;SO_3$)가 증가할 때의 결합에너지를 MP2/6-311G** 수준까지 계산하였다. $SnOn\;(n\;=\;1{\sim}4)$의 경우 S-O 단량체 증가에 따라 상대적으로 안정화되는 경향이 강하게 나타났으며, 약 20-25 kcal/mol 정도 증가하는 것으로 예측 되었다. 반면 $S_nO_{2n},\;S_nO_{3n} \;(n\;=\;1{\sim}4)$의 경우에는 $SO_2$ 나 $SO_3$ 의 증가에 따른 열역학적 안정성이 상대적으로 덜 안정화 되는 것으로 나타났으며, SO2 단량체가 증가함에 따른 결합에너지 변화는 2.2 kcal/mol, 그리고 $SO_3$ 단량체가 증가함에 따라 흡열반응으로 나타나 열역학적으로 더욱 불안정해질 것으로 예상된다.