• BMB Reports
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• 제29권4호
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• pp.277-285
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• 1996

In Pseudomonas fluorescens grown on malonate as sole carbon source, acetyl-CoA synthetase was induced, suggesting that malonate is metabolized through acetate and then acetyl-CoA. Acetyl-CoA synthetase was purified 18.6-fold in 4 steps to apparent homogeneity. The native molecular mass of the enzyme estimated by a native acrylamide gel electrophoresis was 130 kDa. The enzyme was composed of two identical subunits with a molecular mass of 67 kDa. Optimum pH was 70. The acetyl-CoA synthetase showed typical Michaelis-Menten kinetics for the substrates, acetate, ATP and CoA, whose $K_m$ values were calculated to be 33.4, 74.8, and 40.7 mM respectively. Propionate. butyrate and pentanoate were also used as substrates by the enzyme, but the rate of the formation of the CoA derivatives was decreased in the order of the increase in carbon number. The enzyme was inhibited by the group-specific reagents diethylpyro-carbonate, 2,3-butanedione, pyridoxal-5'-phosphate and N-bromosuccinimide. In the presence of substrates the inactivation rate of the enzyme, by all of the group-specific reagents mentioned above decreased, indicating the presence of catalytically essential histidine, arginine, lysine and tryptophan residues at or near the active site. Preincubation of the enzyme with ATP, $Mg^{2+}$ resulted in the increase of its susceptibility to diethylpyrocarbonate, suggesting that ATP, $Mg^{2+}$ may induce a conformational change in the active site exposing the essential histidine residue to diethylpyrocarbonate. The enzyme was acetylated in the presence of acetyl-CoA, indicating that this is one of acyl-enzyme.

• 농약과학회지
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• 제9권3호
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• pp.191-198
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• 2005

신규 살충제 표적 단백질인 AnCE의 활성부위 잔기들과 상호작용 가능한 약리단 (pharmacophore)을 세 개의 펩타이드로 이루어진 ACE 기질 Hippuryl-L -histidyl-L-leucine (Hip-L-His-L-Leu, HHL) 분자의 구조를 모델로 하여 예측하였다. HHL의 분자구조, 용액장 내에서의 구조변화 그리고 약리단을 구성하는 원자들의 전하밀도 분석을 위해 순이론적인 양자화학 계산방법을 이용하여 구조 최적화, NMR 화학적 이동 및 NPA 계산을 수행하였다. 이론적인 NMR 화학적 이동 값들은 실험 결과와 잘 일치함을 보였고 전하밀도 계산 결과는 해당원자의 약리단을 분석하는데 사용되었다. 결과적으로 HHL 분자 구조를 통해 소수성(aromatic, aliphatic), 수소결합 주게, 수소결합 받게, 금속 아연 결합부위의 5개 약리단을 추출할 수 있었다.

• 생명과학회지
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• 제14권2호
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• pp.309-314
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• 2004

cAMP수용성 단백질(CRP)은 E. coli의 100가지 이상의 유전자 전자조절에 관계된다. CRP는 dimer로 존재하며 cAMP의 결합으로 활성인 형태로 전환된다. 이중체인 CRP 단백질의 열 안정성과 구조 전이의 연구에 효과적인 온도 기울기 전기영동장치를 이용하여 확인하였다. 본 연구에서 야생형과 S83C CRP 단백질의 melting temperature (Tm)는 산성인 완충용액[89.8 mM Glycine, 24mM Boric acid (pH 5.8)]에서 57$\pm$1(야생형 CRP)과 55$\pm$1$^{\circ}C$ (S83G CRP)였다. 그리고 온도에 따른 CRP 단백질의 구조변화도 protease digestion과 CD spectropolarimeter을 이용하여 확인하였다.

• Molecules and Cells
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• 제26권1호
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• pp.61-66
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• 2008

Cyclic AMP receptor protein (CRP) is allosterically activated by cAMP and functions as a global transcription regulator in enteric bacteria. Structural information on CRP in the absence of cAMP (apo-CRP) is essential to fully understand its allosteric behavior. In this study we demonstrated interdomain interactions in apo-CRP, using a comparative thermodynamic approach to the intact protein and its isolated domains, which were prepared either by limited proteolysis or using recombinant DNA. Thermal denaturation of the intact apo-CRP, monitored by differential scanning calorimetry, revealed an apparently single cooperative transition with a slight asymmetry. Combined with circular dichroism and fluorescence analysis, the thermal denaturation of apo-CRP could be interpreted as a coupled process involving two individual transitions, each attributable to a structural domain. When isolated individually, both of the domains exhibited significantly altered thermal behavior, thus pointing to the existence of non-covalent interdomain interactions in the intact apo-CRP. These observations suggest that the allosteric conformational change of CRP upon binding to cAMP is achieved by perturbing or modifying pre-existing interdomain interactions. They also underline the effectiveness of a comparative approach using calorimetric and structural probes for studying the thermodynamics of a protein.

• 미생물학회지
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• 제28권1호
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• pp.19-26
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• 1990

To examine the effects of sequence variations near the transcriptional start site on the rate of formation of the open complexes at bacteriophage $\lambda P_{R}$ promoter, two mutant promoters were created by site-specific mutagenesis using synthetic oligonucleotides. Mutant I coatains changes at positions -3 and -4 from TT to CC, thus having a 6-bp long G/C stretch between -10 region and transciptional start site (+1). Mutant II has changes at positions -5 and -6 from GG to AA, thereby having a 9-bp long A/T stretch between positions -11 and -3. Selective filter binding assays were performed to measure the rate of formation of the open complexes between the wild-type or two mutant $P_{R}$ promoters on 664 bp fragments and E. coli RNA polymerase at two temperatures. At 37.deg.C, the wild-type and two mutants showed similar rates for the formation of open complex. The second order rate constant $k_{a}$ and $\tau _{int}$, as determined from the .tau.-plot analysis, were $(6.0\pm0.4)\times10^{6}M^{-1}sec^{-1}$ and $11\pm5$sec, respectively. At 18.deg.C, however, the wild-type and two mutant promoters showed differences in the kinetic parameters. k for the wild-type promoter was (2.2$\pm$0.1)\times 10^{6}M^{-1}sec^{-1}$ and $\tau _{int}$ was 76$\pm$sec. Mutant I and II exhibited differences mainly in the rate of isomerization ($\tau_{int,I}=91\pm$10 sec, int,II=34$\pm$ sec), whereas the second order rate constant $k_{a}$ was similar to the wild type value. This result implies that at $18^{\circ}C$, the isomerization rate is determined by both protein conformational change and DNA melting, which are separable kinetically according to the 3-step mechanism of Roe et al.(1984,1985), and that the base changes affected mainly the rate of DNA melting as predicted.lting as predicted.

• 대한화학회지
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• 제40권12호
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• pp.748-755
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• 1996

물과 요소 수용액에서 Poly(ethylene oxide)(PEO)의 구조 성질에 대한 온도의 효과를 보고한다. 물과 요소/물 혼합물 (요소 농도는 각각 0.2, 1, 2 M)에서 PEO에 대한 고유점도와 Huggins 계수의 값은 점도측정 방법에 의해 얻어졌으며, 이것을 물 구조 변화 관점에서 논의했다. 낮은 온도(22.deg.C이하)에서 PEO-물간 상호작용은 우세해 사슬은 펼쳐져있는 반면, 높은 온도(24.ang.C 이상)에서는 상호작용이 우세하지 못하고 사슬은 소수성 수화에 의해 어켜있게 된다. 즉, 온도가 상승함에 따라 PEO-물 상호작용은 우세하지 못하게 된다. 요소가 계에 가해짐에 따라 PEO사슬은, 우세하지 못한 PEO-물 상호작용으로부터 유발된 구조화된 물의 동요에 의해, 더 펼쳐지거나 거대해지게 된다. 고유점도 값에 대한 온도의 효과는 Arrhenius 행동을 나타낸다. 따라서 점성 흐름에 대한 활성화 에너지를 구해 논의하였다.

• Journal of Ginseng Research
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• 제20권3호
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• pp.274-283
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• 1996

In this study, the effects of red ginseng components [ginsenosides (total saponins and $Rg_1$) on the function of ryanodine receptor (RyR) -$Ca^{2+}$ release channel complex protein (named as RyR or $Ca^{2+}$ channel), a membrane protein in sarcoplasmic reticulum (SR) of rabbit skeletal muscle were examined at the SR vesicle's level and the molecular levels with Chaps-solubilized and purified $Ca^{2+}$ channel protein and with reconstituted proteoliposomes by dialysis. The results were as follows. 1. The binding of ryanodine known as inhibitor of muscle contraction to the RyR was decreased at the whole range of concentration ($10^2$~$10^7$%) by these two ginseng components. In heavy SR vesicles, Chaps-solubilized and purified $Ca^{2+}$ channel protein, and reconstituted vesicles, its maximal inhibition by total saponins was shown at the concentration of $10^3$, $10^3$%, and $10^5$% respectively, and by gin- senoside $Rg_1}$) each was $10^3$%, $10^3$%, and $10^4$%. 2. The release of $Ca^{2+}$ ion through $Ca^{2+}$ channel in heavy SR vesicles and reconstituted proteoliposomes was increased as a whole by these two ginseng components, and particularly maximal release by both of them was shown at the range of $10^4$~$10^6$%. These results were seemed to be caused by conformational change of $Ca^{2+}$ release channel protein (RyR) by red ginseng components [ginsenosides (total saponins and $Rg_1}$).

• Biomolecules & Therapeutics
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• 제20권4호
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• pp.393-398
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• 2012

Recently, we reported that defective autophagy may contribute to the inhibition of the growth in response to PP2 (4-amino-5-(4-chlorophenyl)-7-(t-butyl)pyrazolo[3,4-d]pyrimidine), a selective SFK inhibitor, in multidrug-resistant v-Ha-ras-transformed NIH 3T3 cells (Ras-NIH 3T3/Mdr). In this study, we demonstrated that PP2 induces LC3 conversion via a mechanism that is uncoupled from autophagy and increases apoptosis in Ras-NIH 3T3/Mdr cells. PP2 preferentially induced autophagy in Ras-NIH 3T3 cells rather than in Ras-NIH 3T3/Mdr cells as determined by LC3-I to LC3-II conversion and GFP-LC3 fluorescence microscopy. Beclin 1 knockdown experiments showed that, regardless of drug resistance, PP2 induces autophagy via a Beclin 1-dependent mechanism. PP2 induced a conformational change in Beclin 1, resulting in the enhancement of the pro-autophagic activity of Beclin 1, in Ras-NIH 3T3 cells. Further, PI3K inhibition induced by wortmannin caused a significant increase in apoptosis in Ras-NIH 3T3 cells, as demonstrated by flow cytometric analysis of Annexin V staining, implying that autophagy inhibition through PI3K increases apoptosis in response to PP2 in Ras-NIH 3T3 cells. However, despite the fact that wortmannin abrogates PP2-induced GFP-LC3 punctae formation, some LC3 conversion remains in Ras-NIH 3T3/Mdr cells, suggesting that LC3 conversion may occur in an autophagy-independent manner. Taken together, these results suggest that PP2 induces LC3 conversion independent of PI3K, concomitant with the uncoupling of LC3 conversion from autophagy, in multidrug-resistant cells.

• 생명과학회지
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• 제18권4호
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• pp.585-589
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• 2008

Actin cytoskeleton rearrangement를 조절하는 cofilin은 인산기가 제거되면서 활성화되는데 이를 담당하는 효소가 chronophin이다. 이 효소는 비타민 $B_6$의 활성형태인 pyridoxal 5'-phosphate (PLP)의 세포 내 농도를 조절하는 PLP phosphatase로도 알려져 있다. Chronophin은 cap 도메인과 core 도메인을 갖는 HAD family에 속하는 phosphatase이며 다른 HAD phosphatase와 같이 기질결합을 위해 cap 도메인과 core 도메인 사이의 활성부위가 노출되는 열린 형태로의 전환이 있을 것으로 추정되었다. 이전의 밝혀진 chronophin/PLPP의 결정구조에서는 단백질의 결정화과정이 산화된 상태에 이루어졌기에 cap 도메인의 C91과 core 도메인의 C221 사이에 disulfide bond가 있었으며 이것이 cap 도메인과 core 도메인사이의 움직임을 막고 있었다. 본 연구에서는 환원된 상태의 chronophin의 결정체를 얻어 chronophin의 구조를 규명하였다. 환원된 상태의 chronophin의 구조에는 C91과 C221간의 disulfide 결합은 없었으나 산화된 상태와 동일한 닫힌 형태이었으며 국부적인 core 도메인의 움직임이외에는 core 도메인과 cap 도메인의 구조에는 변화가 없었다. 이는 chronophin이 기질이 없는 상태에서 닫힌 형태로 유지되는 것이 disulfide bond에 의한 것이 아님을 의미하며 세포 내의 환원된 상태에서도 닫힌 구조를 유지함으로서 높은 기질 특이성을 보여줄 것임을 암시한다.

• 한국축산식품학회지
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• 제30권3호
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• pp.397-402
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• 2010

Pork is an excellent source of essential nutrients such as protein. However, pork can trigger hypersensitivity and serum albumin of pork is known as major allergen. In this study, to evaluate the effect of gamma irradiation on the allergenicity of porcine serum albumin (PSA), PSA solution was irradiated at 3, 5, 7, 10, 15, and 20 kGy. The changes in the ability of PSA to bind IgG and patient's serum caused by gamma irradiation were observed by ci-ELISA and immunoblotting. SDS-PAGE was used for measuring the conformational change of gamma-irradiated PSA. The ability of 3-kGy-irradiated PSA to bind p-IgG and patient's serum was decreased to 30% and 15%, respectively. The binding ability showed no significant differences among all irradiated samples. SDS-PAGE showed that the irradiated PSA bands were degraded and aggregated. Immunoblotting of irradiated PSA revealed that IgG and patient's serum were rarely recognized at 3 kGy. Therefore, gamma irradiation could be applied to less-allergenic pork products.