• Title/Summary/Keyword: Binding state

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Reverse-engineering of Gene Regulatory Network of S. cerevisiae using Knock-out Data (Knock-out Data 를 이용한 S. Cerevisiae 유전자 조절망의 재구성)

  • Hong, Seong-Yong;Sohn, Ki-Rack
    • Proceedings of the Korea Information Processing Society Conference
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    • 2005.11a
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    • pp.603-606
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    • 2005
  • 하나의 유전자는 또 다른 유전자의 단백질과 프로모터 영역에서 Binding 함으로써 그 유전자의 발현에 영향을 미칠 수 있다. 이러한 두 유전자간의 조절 상호 작용을 유전자 조절망이라 하며 유전체의 핵심적인 기능을 보다 간결하게 표현하는 조절망을 설계할 수 있다. 대표적인 설계 방법으로는 Time-Series Data 를 이용한 방법과 Steady-State Data 를 이용하는 방법이 있으며 이 논문에서는 Steady-State Data 즉, Knock-out Data 를 이용하여 유전자 조절망을 재구성함으로써 기존의 방법을 개선하여 보다 정확한 결과 예측을 목표로 한다.

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Effect of Shiitake(Lentinus edodes. p) Mushroom Powder and Sodium Tripolyphosphate on Texture and Flavor of Pork Patties

  • Chun, S.S.;Edger Chambers IV;Delores H. Chambers
    • Proceedings of the Korean Journal of Food and Nutrition Conference
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    • 2004.07a
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    • pp.48-48
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    • 2004
  • Shiitake mushroom contained numerous nutrients, special flavor (lenthionine) and taste. In Asia, they are thought to have numerous medical properties f3r several diseases such as diabetes, anemia, tumors. Phosphates are known to increase hydration and water binding, stabilize meat emulsions, improve juiciness and tenderness, provide mineral supplementation, and maintain flavor of processed meat products. A lexicon f3r describing the texture and flavor of cooked pork patties were developed. (omitted)

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Valence band of graphite oxide

  • Jeong, Hye-Gyeong;Kim, Gi-Jeong;Kim, Bong-Su
    • Proceedings of the Korean Vacuum Society Conference
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    • 2011.02a
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    • pp.321-321
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    • 2011
  • We have investigated the electronic structure of graphite oxide by photoelectron spectroscopy at the Pohang Accelerator Laboratory, Korea. The typical sp2 hybridization states found in graphite were also seen in graphite oxide. However, the ${\pi}$ state disappeared near the Fermi level because of bonding between the ${\pi}$ and oxygen-related states originating from graphite oxide, indicating electron transfer from graphite to oxygen and resulting in a downward shift of the highest occupied molecular orbital (HOMO) state to higher binding energies. The band gap opening increased to about 1.8 eV, and additional oxygen-related peaks were observed at 8.5 and 27 eV.

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Regulation of Macrophage Ceruloplasmin Gene Expression: One Paradigm of 3'-UTR-mediated Translational Control

  • Mazumder, Barsanjit;Sampath, Prabha;Fox, Paul L.
    • Molecules and Cells
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    • v.20 no.2
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    • pp.167-172
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    • 2005
  • Ceruloplasmin (Cp) is a copper protein with important functions in iron homeostasis and in inflammation. Cp mRNA expression is induced by interferon (IFN)-${\gamma}$ in U937 monocytic cells, but synthesis of Cp protein is halted after about 12 h by transcript-specific translational silencing. The silencing mechanism requires binding of a 4-component cytosolic inhibitor complex, IFN-gamma-activated inhibitor of translation (GAIT), to a defined structural element (GAIT element) in the Cp 3'-UTR. Translational silencing of Cp mRNA requires the essential proteins of mRNA circularization, suggesting that the translational inhibition requires end-to-end mRNA closure. These studies describe a new mechanism of translational control, and may shed light on the role that macrophage-derived Cp plays at the intersection of iron homeostasis and inflammation.

Interaction of Indigo Carmine with Cetyltrimethylammonium Bromide and Application to Determination of Cationic Surfactant in Wastewater

  • Wang, Hong-Yan;Gao, Hong-Wen;Zhao, Jian-Fu
    • Bulletin of the Korean Chemical Society
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    • v.24 no.10
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    • pp.1444-1448
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    • 2003
  • The microsurface adsorption - spectral correction (MSASC) technique has been applied to the interaction of indigo carmine (IC) with cetyltrimethylammonium bromide (CTAB). The aggregation of IC on CTAB obeys Langmuir isothermal adsorption. The results show that both the monomer complex $IC{\cdot}CTAB$ and the micellar complex $(IC{\cdot}CTAB)_{78}$ were formed. The binding constant of the monomer complex was calculated to be $K_{IC{\cdot}CTAB}$ = 2.20 ${\times}10^5L{\cdot}mol^{-1}$, and the molar absorptivity of the micellar complex was calculated to be ${\varepsilon}_{(IC{\cdot}CTAB)78}\;^{560nm}$ = 8.58 ${\times}10^5L{\cdot}mol^{-1}{\cdot}cm^{-1}$. The aggregation was applied to the determination of cationic surfactant in wastewater.

Mechanisms of Cu(II) Sorption at Several Mineral/Water Interfaces: An EPR Study

  • Cho, Young-Hwan;Hyun, Sung-Pil;Pilsoo Hahn
    • Proceedings of the Korean Magnetic Resonance Society Conference
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    • 2002.08a
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    • pp.72-72
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    • 2002
  • In most traditional sorption study in environmental conditions, experimental sorption data have been measured and interpreted by empirical ways such as partition coefficient and sorption isotherms. A mechanistic understanding of heavy metal interactions with various minerals (metal oxides, clay minerals) in aqueous medium is required to describe the behavior of radioactive metal ions in the environment. Various spectroscopic methods provide direct or indirect information on sorption mechanisms involved. We applied EPR (Electron Paramagnetic Resonance) spectroscopy to investigate the nature of metal ion sorption at water/mineral interfaces using Cu(II) as a spin probe. The major sorbed species and their motional state was identified by their EPR spectra. They showed distinct signals due to their strength of binding, local structure and motional state. The EPR results together with macroscopic sorption data show that sorption involved at least three different mechanisms depending on chemical environments (1).

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Fluorescence Intensity Changes for Anthrylazacrown Ethers by Paramagnetic Metal Cations

  • 장정호;김해중;박중희;신영국;정용석
    • Bulletin of the Korean Chemical Society
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    • v.20 no.7
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    • pp.796-800
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    • 1999
  • Three anthrylazacrown ethers in which the anthracene fluorophore π system is separated from the electron donor atoms by one methylene group were synthesized, and their photophysical study was accomplished. These fluorescent compounds showed a maximum fluorescence intensity at pH=5 in aqueous solutions and a decrease in fluorescence intensity upon binding of paramagnetic metal cations (Mn 2+ (d 5 ), Co 2+ (d 7 ), Cu 2+ (d 9 )). The decrease in fluorescence intensity may be attributed to the paramagnetic effect of metal cations to deactivate the excited state by the nonradiative quenching process. The benzylic nitrogen was found to play an important role in changing fluorescence intensity. From the observed linear Stern-Volmer plot and the fluorescence lifetime independence of the presence of metal ions, it was inferred that the chelation enhanced fluorescence quenching (CHEQ) mechanism in the system is a ground state static quenching process. Enhanced fluorescence was also observed when an excess Na + ion was added to the quenched aqueous solution, and it was attributed to cation displacement of a complexed fluorescence quencher.

Backbone NMR chemical shift assignment of transthyretin

  • Kim, Bokyung;Kim, Jin Hae
    • Journal of the Korean Magnetic Resonance Society
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    • v.25 no.1
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    • pp.8-11
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    • 2021
  • Transthyretin (TTR) is an important transporter protein for thyroxine (T4) and a holo-retinol protein in human. In its native state, TTR forms a tetrameric complex to construct the hydrophobic binding pocket for T4. On the other hand, this protein is also infamous for its amyloidogenic propensity, which causes various human diseases, such as senile systemic amyloidosis and familial amyloid polyneuropathy/cardiomyopathy. In this work, to investigate various structural features of TTR with solution-state nuclear magnetic resonance (NMR) spectroscopy, we conducted backbone NMR signal assignments. Except the N-terminal two residues and prolines, backbone 1H-15N signals of all residues were successfully assigned with additional chemical shift information of 13CO, 13Cα, and 13Cβ for most residues. The chemical shift information reported here will become an important basis for subsequent structural and functional studies of TTR.

The International Arbitration System for the Settlement of Investor-State Disputes in the FTA (FTA(자유무역협정)에서 투자자 대 국가간 분쟁해결을 위한 국제중재제도)

  • Lee, Kang-Bin
    • THE INTERNATIONAL COMMERCE & LAW REVIEW
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    • v.38
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    • pp.181-226
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    • 2008
  • The purpose of this paper is to describe the settling procedures of the investor-state disputes in the FTA Investment Chapter, and to research on the international arbitration system for the settlement of the investor-state disputes under the ICSID Convention and UNCITRAL Arbitration Rules. The UNCTAD reports that the cumulative number of arbitration cases for the investor-state dispute settlement is 290 cases by March 2008. 182 cases of them have been brought before the ICSID, and 80 cases of them have been submitted under the UNCITRAL Arbitration Rules. The ICSID reports that the cumulative 263 cases of investor-state dispute settlement have been brought before the ICSID by March 2008. 136 cases of them have been concluded, but 127 cases of them have been pending up to now. The Chapter 11 Section B of the Korea-U.S. FTA provides for the Investor_State Dispute Settlement. Under the provisions of Section B, the claimant may submit to arbitration a claim that the respondent has breached and obligation under Section A, an investment authorization or an investment agreement and that the claimant has incurred loss or damage by reason of that breach. Provided that six months have elapsed since the events giving rise to the claim, a claimant may submit a claim referred to under the ICSID Convention and the ICSID Rules of Procedure for Arbitration Proceedings; under the ICSID Additional Facility Rules; or under the UNCITRAL Arbitration Rules. The ICSID Convention provides for the jurisdiction of the ICSID(Chapter 2), arbitration(Chapter 3), and replacement and disqualification of arbitrators(Chapter 5) as follows. The jurisdiction of the ICSID shall extend to any legal dispute arising directly out of an investment, between a Contracting State and a national of another Contracting State, which the parties to the dispute consent in writing to submit to the ICSID. Any Contracting State or any national of a Contracting State wishing to institute arbitration proceedings shall address a request to that effect in writing to the Secretary General who shall send a copy of the request to the other party. The tribunal shall consist of a sole arbitrator or any uneven number of arbitrators appointed as the parties shall agree. The tribunal shall be the judge of its own competence. The tribunal shall decide a dispute in accordance with such rules of law as may be agreed by the parties. Any arbitration proceeding shall be conducted in accordance with the provisions of the Convention Section 3 and in accordance with the Arbitration Rules in effect on the date on which the parties consented to arbitration. The award of the tribunal shall be in writing and shall be signed by members of the tribunal who voted for it. The award shall deal with every question submitted to the tribunal, and shall state the reason upon which it is based. Either party may request annulment of the award by an application in writing addressed to the Secretary General on one or more of the grounds under Article 52 of the ICSID Convention. The award shall be binding on the parties and shall not be subject to any appeal or to any other remedy except those provided for in this Convention. Each Contracting State shall recognize an award rendered pursuant to this convention as binding and enforce the pecuniary obligations imposed by that award within its territories as if it were a final judgment of a court in that State. In conclusion, there may be some issues on the international arbitration for the settlement of the investor-state disputes: for example, abuse of litigation, lack of an appeals process, and problem of transparency. Therefore, there have been active discussions to address such issues by the ICSID and UNCITRAL up to now.

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3D-QSAR and Molecular Docking Studies on Benzotriazoles as Antiproliferative Agents and Histone Deacetylase Inhibitors

  • Li, Xiaolin;Fu, Jie;Shi, Wei;Luo, Yin;Zhang, Xiaowei;Zhu, Hailiang;Yu, Hongxia
    • Bulletin of the Korean Chemical Society
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    • v.34 no.8
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    • pp.2387-2393
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    • 2013
  • Benzotriazole is an important synthetic auxiliary for potential clinical applications. A series of benzotriazoles as potential antiproliferative agents by inhibiting histone deacetylase (HDAC) were recently reported. Three-dimensional quantitative structure-activity relationship (3D-QSAR), including comparative molecular field analysis (CoMFA) and comparative molecular similarity indices analysis (CoMSIA), were performed to elucidate the 3D structural features required for the antiproliferative activity. The results of both ligand-based CoMFA model ($q^2=0.647$, $r^2=0.968$, ${r^2}_{pred}=0.687$) and CoMSIA model ($q^2=0.685$, $r^2=0.928$, ${r^2}_{pred}=0.555$) demonstrated the highly statistical significance and good predictive ability. The results generated from CoMFA and CoMSIA provided important information about the structural characteristics influence inhibitory potency. In addition, docking analysis was applied to clarify the binding modes between the ligands and the receptor HDAC. The information obtained from this study could provide some instructions for the further development of potent antiproliferative agents and HDAC inhibitors.