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The rate-determining step in the dark state recovery process in the photocycle of PYP

  • Sasaki, Jun;Kumauchi, Masato;Hamada, Norio;Tokunaga, Fumio
    • Journal of Photoscience
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    • v.9 no.2
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    • pp.130-133
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    • 2002
  • The last step in the photocycle of photoactive yellow protein (PYP) is a spontaneous recovery of the dark state from the active state in which the p-coumaric acid chromophore is thermally isomerized, concomitantly with the deprotona- tion of the chtomophore and the refolding of the protein moicty. For the purpose of understanding the mechanism of the thermal back-isomerization, we have investigated the rate-determining step by analyzing mutant PYPs of Met100, which was previously shown to play a major role in facilitating the reaction (1). The mutation to Lys, Leu, Ala, or Glu decelerated the dark state recovery by 1 to 3 three orders of magnitude. By evaluating temperature-dependence and pH-dependence of the kinetics of the dark state recovery, it was found that the retardation by mutations resulted from elevation of the activation enthalpy ( H$\^$┿/) and that the pKa of the chromophore, which was affected by the mutation, is in a linier correlation with the amplitude of the rate constants. It was, therefore, deduced from the correlation that the free energy for crossing the activated state in the dark recovery process is proportional to the free energy for the deprotonation of the chromophore, identifying the rate-determining step as the deprotonation of the chromophore. (1) Devanathan, S. Genick, U. K. Canestrelli, I. L. Meyer, T. E. Cusanovich, M. A. Getzoff, E. D. Tollin, G., Biochemistry 1998, 37, 11563 - 11568

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On the Minimization of Crosstalk Conflicts in a Destination Based Modified Omega Network

  • Bhardwaj, Ved Prakash;Nitin, Nitin
    • Journal of Information Processing Systems
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    • v.9 no.2
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    • pp.301-314
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    • 2013
  • In a parallel processing system, Multi-stage Interconnection Networks (MINs) play a vital role in making the network reliable and cost effective. The MIN is an important piece of architecture for a multiprocessor system, and it has a good impact in the field of communication. Optical Multi-stage Interconnection Networks (OMINs) are the advanced version of MINs. The main problem with OMINs is crosstalk. This paper, presents the (1) Destination Based Modified Omega Network (DBMON) and the (2) Destination Based Scheduling Algorithm (DBSA). DBSA does the scheduling for a source and their corresponding destination address for messages transmission and these scheduled addresses are passed through DBMON. Furthermore, the performance of DBMON is compared with the Crosstalk-Free Modified Omega Network (CFMON). CFMON also minimizes the crosstalk in a minimum number of passes. Results show that DBMON is better than CFMON in terms of the average number of passes and execution time. DBSA can transmit all the messages in only two passes from any source to any destination, through DBMON and without crosstalk. This network is the modified form of the original omega network. Crosstalk minimization is the main objective of the proposed algorithm and proposed network.

Numerical Analysis of Impact Forces and Entry Behaviors of the High Speed Water Entry Bodies (고속으로 입수하는 물체에 대한 충격량 및 입수 거동 해석)

  • Kim Y. W.;Park W. G.;Kim C. S.
    • Journal of computational fluids engineering
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    • v.4 no.1
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    • pp.1-7
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    • 1999
  • The numerical methodology for computing tile impact forces and water entry behaviors of high speed water entry bodies was been developed. Since the present method assumed the impact occurs within a very short time interval. the viscous effects do not have enough time to play a significant role in the impact forces, that is, the flow around a water-entry object was assumed as an incompressible potential flow and is solved by the source panel method. The elements fully submerged into the water are routinely treated, but the elements intersected by the effective planar free surface are redefined and reorganized to be amenable to the source panel method. To validate the present code, it was applied to disk, cone and ogive model and compared with experimental data. Good agreement was obtained. The water entry behavior such as the bouncing phenomena from the free surface was also simulated using the impact forces and two degree of freedom dynamic equation. Physically acceptable results were obtained.

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A Numerical Study on the Spray Dryer Characteristic for Manufacture of Deep Sea Water Salt (해양심층수 기능성소금 제조를 위한 분무건조기 특성의 수치해석적 연구)

  • Kim, Hyeon-Ju;Shin, Phil-Kwon;Park, Seong-Je
    • Proceedings of the Korea Committee for Ocean Resources and Engineering Conference
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    • 2003.10a
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    • pp.24-29
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    • 2003
  • Deep sea water has cold temperature, abundant nutrients and minerals, and good water quality that is pathogen-free and stable. Compared with surface water, deep sea water contains more nutrition salt, such as nitrogen and phosphor. Moreover, if has the good balance of minerals. Because of the ability of the spray drying process to produce a free-flowing power considering of spherical particles with a well-defined size distribution and the rapid drying times for heat-sensitive material, spray drying is attractive for a wide range of applications spray drying is a unique unit operation in which powders are produced from a liquid feed in a single processing step. Key component of the process are atomizer, spray chamber. Design of spray chamber should be based on the atomizer type, the production rate, and the particle size required. Because of the complex processes taking place during spray drying, traditional design method are based on pilot-plant tests and empirical scale-up rules. Modern technique such as CFD have a role to play in design and troubleshooting.

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Inhibitory Effect of $Mg^{2+}$ on the Release of $Ca^{2+}$ from Ryanodine Receptor of the Sarcoplasmic Reticulum in the Skeletal Muscle (골격근 망상체 $Ca^{2+}$유리 Channel[Raynodine receptor]의 $Mg^{2+}$에 의한 유리 억제)

  • 이철주
    • Journal of Chest Surgery
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    • v.25 no.4
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    • pp.347-355
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    • 1992
  • The precise mechanism of the Excitation-Contraction Coupling is still uncertain. But the concept that Ca2+ induced Ca2+ release [CICR] from the Ryanodine receptor in the sarcoplasmic reticulum [foot structure] may play a major role in E-C coupling has been widely accepted since 1970`s. It is believed that increased cytosolic Ca2+ followed by CICR is main contributor for E-C coupling of striated muscle. Resulting phenomena of ischemic /post-reperfusion myocyte is increased cytosolic Ca2+, even to the absence of Ca2+ in reperfusate. So intracellular inhibitor to CICR might prevent the ischemic and reperfusion damage of myocardial cells. The relatively purified foot protein, especially heavy sarcoplasmic reticulum rich, of the skeletal muscle was incorporated into the black lipid bilayer [Phosphatidyl ethanolamine: Phosphatidyl serine=l: 1]. Under the steady state of membrane potential [+20 mV], ionic current through Ryanodine receptor was measured with Cs+ as charge carrier. In the cis chamber [Cytoplasmic side], Mg2+ strongly inhibited CICR of Ryanodine receptor[Kd=6.2 nM]. In conclusion, naturally existing intracellular free Mg2+ can inhibit CICR from intracellular Ca2+ reservior [heavy SR]. So post-ischemic or post-reperfusing myocardium could be preserved using additional free Mg2+ in cardioplegic solution or reperfusate, otherwise the optimal concentration is undetermined.

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Preventive Effects of Sihosamultang Extract on Lipid Peroxidation by Free Radicals and Oxidative Damage of Hepatocytes by tert-Butyl Hydroperoxide (시호사물탕이 t-BHP로 유도된 간세포의 산화적 손상 및 자유기에 의한 지질과산화 반응에 미치는 영향)

  • Kim Tae-Gi;Park Sun-Dong;Moon Jin-Young
    • Herbal Formula Science
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    • v.8 no.1
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    • pp.241-255
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    • 2000
  • Sihosamultang(SST) has been used for the treatment of puerperal fever, liver disease in traditional medicine. The present study was carried out to evaluate the antioxidant effects of SST extract in vitro. The inhibitory effect of SST extract on lipid peroxidant was examined in the linoleic acid autoxidation system. In this test, SST extract significantly inhibited the time course of the lipid peroxidation. And SST extract showed about 73% scavenging effect on DPPH radical. And this extract inhibited not only the lipid peroxide formation induced by hydroxyl radical derived from $ H_{2}O_{2}-Fe^{2+}$ in the rat liver homogenate, but also the superoxide generation from xanthine-xanthine oxidase system in a dose-dependent manner. In addition, SST extract protected the hepatic cell death induced by tert-butyl hydroperoxide. These data indicated that SST might play a protective role against oxidative injury by free radicals.

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Oxidative stress and the antioxidant enzyme system in the developing brain

  • Shim, So-Yeon;Kim, Han-Suk
    • Clinical and Experimental Pediatrics
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    • v.56 no.3
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    • pp.107-111
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    • 2013
  • Preterm infants are vulnerable to the oxidative stress due to the production of large amounts of free radicals, antioxidant system insufficiency, and immature oligodendroglial cells. Reactive oxygen species (ROS) play a pivotal role in the development of periventricular leukomalacia. The three most common ROS are superoxide ($O2^{\cdot-}$), hydroxyl radical ($OH^{\cdot}$), and hydrogen peroxide ($H_2O_2$). Under normal physiological conditions, a balance is maintained between the production of ROS and the capacity of the antioxidant enzyme system. However, if this balance breaks down, ROS can exert toxic effects. Superoxide dismutase, glutathione peroxidase, and catalase are considered the classical antioxidant enzymes. A recently discovered antioxidant enzyme family, peroxiredoxin (Prdx), is also an important scavenger of free radicals. Prdx1 expression is induced at birth, whereas Prdx2 is constitutively expressed, and Prdx6 expression is consistent with the classical antioxidant enzymes. Several antioxidant substances have been studied as potential therapeutic agents; however, further preclinical and clinical studies are required before allowing clinical application.

Ethylene Evolution in Tomato Plants by Ozone in Relation to Leaf Injury (토마토 오존처리에 의한 에틸렌 생성과 가시 장해 발현과의 관계)

  • 배공영;이용범
    • Journal of Korean Society for Atmospheric Environment
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    • v.12 no.3
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    • pp.333-340
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    • 1996
  • The relationship between ozone-induced damages and ethylend evolution was examined in tomato plants fumigated with ozone of 0.2 $\mu\ell/\ell$. The rate of evolution of ethylent by tomato plants was enhanced by ozone fumigation. Pretreatment of leaves with aminoethoxyvinylglycine (AVG), an inhibitor of ethylene evolution, significantly inhibited the evolution of ethylene that was induced by ozone and concomitantly reduced the extent of ozone-induced visible damage to leaves. Treatment with 2,5-norbonadiene (NBD), and inhibitor of the action of ethylene, strongly reduced the extent of visible damage caused by ozone, even though it did not suppress the evolution of ethylene. These results indicated that ethylene might play an important role in ozone-induced plant injuries at relatively short terms of ozone fumigation. Next, we examined the effect of tiron, a scanvenger of the free-radical, on evolution of ethylene and leaf injury caused by ozone. Tiron treatment strongly reduced the extent of ozone-induced injury, but had not inhibitory effect on the evolution of ethylene from tomato leaves. This result suggests the involvement of free-radical, such as superoxide radicals, in induction of injuries caused by ozone.

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Effects of Small Molecular Antioxidants on Cerulein-induced Acute Pancreatitis in Rat

  • Choi, Joo-Young;Kim, Kyung-Hwan
    • The Korean Journal of Physiology and Pharmacology
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    • v.2 no.5
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    • pp.629-635
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    • 1998
  • It has been suggested that oxygen free radicals are involved in the initiation process of acute pancreatitis, although its pathogenesis is not clear. This study evaluates the roles of oxygen radicals and the effects of small molecular antioxidants (rebamipide, N-acetyl-cysteine, allopurinol, ${\beta}-carotene)$ on the development of cerulein-induced acute pancreatitis. Acute edematous pancreatitis was induced by the intravenous infusion of cerulein at supramaximal dose of 10 ${\mu}g/kg/hour$ for 3.5 hours. The effects of antioxidants, rebamipide (100 mg/kg, i.p.), N-acetyl-cysteine (200 mg/kg, i.v.), allopurinol (20 mg/kg/hour), ${\beta}-carotene$ (50 mg/kg, i.p.), were examined. Cerulein administration resulted in a significant increase in serum amylase activity and pancreatic malondialdehyde (MDA), but not glutathione peroxidase (GSHpx). The glutathione (GSH) content in pancreatic tissue decreased dramatically. Pretreatment of N-acetyl-cysteine significantly decreased the cerulein-induced hyperamylasemia and maintained GSH content in pancreas, but MDA was slightly decreased. In addition, N-acetyl-cysteine ameliorated histological damage. Allopurinol and ${\beta}-carotene$ attenuated cerulein-induced hyperamylasemia, but histologically there was no difference from control. These results indicate that oxygen free radicals play an important role in the initiation of experimental acute pancreatitis. N-acetyl-cysteine is an effective antioxidant that ameliorates the cerulein-induced acute pancreatitis, and the possible therapeutic application of antioxidants against acute pancreatitis needs a further evaluation.

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A Case Study of Sandplay Therapy for an Elementary School-aged Girl Living in a Home Suffering from Severe Conflicts between Her Mother and Older Brother : A Focus on Fairy Tales (어머니와 오빠의 심한 갈등 속에서 생활하는 초등학생 여아의 모래놀이치료 사례연구 : 민담의 관점에서)

  • Sim, Hee-Og
    • Korean Journal of Child Studies
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    • v.36 no.1
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    • pp.19-45
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    • 2015
  • This study explored the sandplay therapy case of an elementary school-aged girl living in a home in which there exist severe conflicts between her mother and older brother. This study focused heavily on fairy tales. The goal of the therapy was to encourage appropriate adjustments with the girl's situation within the free and protected space of sandplay therapy. Forty-four therapy sessions were held. The client exhibited evidence of feelings of being abandoned and of becoming lethargic in the initial phase of therapy (1~10, forsakenness/sleeping family). In the intermediate phase of therapy (11~38, regression, opposition and purification/growth), as she displayed signs of regression, princess play, the opposition of goodness and badness and purification, she grew psychologically. In the final phase of therapy (39~44, redemption/rebirth of new consciousness), she was redeemed and reborn with a new sense of consciousness. Using sandplay therapy in a free and protected space, this study showed the various motives of fairy tales in the psyche of a pre-adolescence girl and the effectiveness of sandplay therapy.