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Development and applications of preparation methods of stable-isotopically labeled nucleic acids for structural analysis of high-molecular-weight nucleic acid and nucleic acid-protein complexes.

Research Project

Project/Area Number 08680725
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeSingle-year Grants
Section一般
Research Field Biophysics
Research InstitutionTOKYO METROPOLITAN UNIVERSITY

Principal Investigator

ONO Akira  TOKYO METROPOLITAN UNIVERSITY,Graduate School of Sciemce.Associate Professor, 大学院・理学研究科, 助教授 (10183253)

Project Period (FY) 1996 – 1997
Project Status Completed (Fiscal Year 1997)
Budget Amount *help
¥2,400,000 (Direct Cost: ¥2,400,000)
Fiscal Year 1997: ¥900,000 (Direct Cost: ¥900,000)
Fiscal Year 1996: ¥1,500,000 (Direct Cost: ¥1,500,000)
Keywordsnuclear magnetic resonances / DNA / stable isotope / structural analysis / chemical synthesis / homeodomain / 化学合成 / DNAオリゴマー / RNAオリゴマー / 多次元NMR / ヘア-ピン構造 / 微生物発酵 / ヌクレオシド
Research Abstract

(1) Establishment of synthetic route of ^<13>C-labeled nucleosides from labeled glucose ; The stable-isotopically labeled uridine and thymidine are synthesized from labeled glucose in good overall yields. In contrast, the overall yields of the chemical syntheses of labeled purine nucleosides are not satisfactory. In order to overcome this drawback, we examined an enzymatic method for synthesizing purine nucleosides from pyrimidine nucleosides (uridine and thymidine) and purine bases (adenine and diaminopurine) by enzymatic trans-glycosylation reactions. Thus, adenosine, guanosine, 2'-deoxyadenosune, 2'-deoxyguanosine were obtained in over 90% yields from uridine and thymidine.
(2) Application of labeled DNA oligomers to the structural analysis of DNA-protein complexes ; One of the goal of this study is the completion of the structural analysis of high-molecular-weight DNA-protein complexes. As molecular weight become higher, NMR signals become more broad and overlapped more severely. The signal overlaps can be reduced by using a set of residue-selectively labeled DNA oligomers, then the structural information obtained from isotopomers are accumulated to get more precise three dimensional structures. In order to estimate value of above methodology, the complex of 13C/15N-labeled 14mer DNA duplex and antennapedia homeodomain was used for NMR studies. One of the results, the sugar-phosphate backbone structure, BI or BII,of the DNA duplex can be assigned.

Report

(3 results)
  • 1997 Annual Research Report   Final Research Report Summary
  • 1996 Annual Research Report
  • Research Products

    (26 results)

All Other

All Publications (26 results)

  • [Publications] Oogo, Y.: "Synthesis of [5'-^2H_1]-nucleosides with defined (5'S)/(5'R)-ratios" Tetrahedron Letters in press. 39. (1998)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Ono, A.: "Systematic-synthesis of specifically ^<13>C/^2H-labeled nucleosides from [ul^<13>C_6]-o-glucose" Tetrahedron Letters in press. 39. (1998)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Fernandes, C.: "NMR with ^<13>C/^<15>N-do ubly labeled DNA : the antenapedid homeodomain complex with a 14mer DNA duplex" Journal of biomolecular NMR in press. (1998)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Szyperski, T.: "Measurement of ^3Jcip scalar couplings in a 17kDa protein complex with ^<13>C,^<15>N-labeled DNA distingishes the BI and BII phosphate conformation of the DNA" Journal of American Chemical Society. 119. 9901-9902 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Ono, A.: "Selective multiple labeling strategy to obtain accutate NMR parameters for nudeic acids. Comformational analysis around the glycoside band" Nucleic Acids Symposium Series. 37. 75-76 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Ono, A.: "Synthesis of stereoselectively ^<13>C/^2H-doubly laleled DNA oligomers by the combined use of chemical and enzymatic reactions" Nucleic Acids Symposium Series. 37. 73-74 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Ono, A.: "Synthesis of (5'S)-[5'-^2H_1 ; 1',2',3',4',5'-^<13>C_5]-thymidine via stereoselective deuteration of a 5-oxoribose derivative" Tetrahedron Letters. 38. 395-398 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Oogo, Y., Ono, (Mei)A., Ono, A., Kainosho, M.: "Synthesis of [5'-^2H_1]-nucleosides with defined (5'S)/(5'R)-ratios." Tetrahedron Lett.No.39(in press). (1998)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Ono, (Mei)A., Shiina, T., Ono, A., Kainosho, M.: "Systematic synthesis of specifically ^<13>C/^2H-labeled nucleosides from [ul-^<13>C_6]-D-glucose." Tetrahedron Lett.No.39(in press). (1998)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Fernandez, C., Szyperski, T., Iwai, H., Tate, S., Ono, A., Wuthrich, K., Kainosho, M.: "NMR with ^<13>C/^<15>N-doubly labeled DNA : the Antennapedia Homeodomeain complex with a 14mer DNA duplex." J.Biomol.NMR. (in press). (1998)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Szyperski, T., Fernandez, C., Ono, A., Kainosho, M., Wuthrich, K.: "Measurement of deoxyribose 3JHH scalar couplings reveals protein binding-induced changes in the sugar puckers of the DNA." J.Am.Chem.Soc.(in press). (1998)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Akira Ono, Yu Oogo, Shin-ichi Tate, Akira Ono, Kainosho Masatsune: "Synthesis stereoselectively ^<13>C/^2H-doubly labeled DNA oligomers by the combined use of chemical and enzymatic reactions" Nucleic Acids Symposium Series. No.37. 73-74 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Akira Ono, Naoki Takaishi, Masanori Tatebe, Akira Ono, Shin-ichi Tate, Masatsune Kainosho: "Selective multiple labeling strategy to obtain accurate NMR parameters for nucleic acids. Conformational analysis around the glycosidic bond." Nucleic Acids Symposium Series. No.37. 75-76 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Ono, A., Ono, A., Kainosho, M.: "Synthesis of (5'S)-[5'-^2H_1 ; 1', 2', 3', 4', 5'-^<13>C_5]-thymidine via stereoselective deuteration of a 5-oxoribose derivative." Tetrahedron Lett.38. 395-398 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Oogo,Y.: "Synthesis of 〔5′-2H_1〕-nucleosides with defined (5′S)/(5′R)-ratios." Tetrahedron Letters. 39巻(in press). (1998)

    • Related Report
      1997 Annual Research Report
  • [Publications] Ono,A: "Systematic synthesis of specifically ^<13>C/^2H-labeled nucleosides from 〔ul,^<13>C_6〕-D-glucose" Tetrahedron Letters. 39巻(in press). (1998)

    • Related Report
      1997 Annual Research Report
  • [Publications] Fernandes,C.: "NMR with ^<13>C/^<15>N-doubly labeled DNA:the anten napedia Homeodomain complex with a 14mer DNA duplex" Journal of Biomolecular NMR. (in press). (1998)

    • Related Report
      1997 Annual Research Report
  • [Publications] Szyperski,T.: "Measurement of ^3Jcip scalar couplings in a 17kDa protein complex with ^<13>C,^<15>N-labeled DNA distingishes the BI and BII phosphate conformations of the DNA" Journal of American Chemical Society. 119. 9901-9902 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] Ono,A: "Selective multiple labeling strategy to obtain accurate NMR parameters for nucleic acids.Conformational analysis around the glycosidic bord" Nucleic Acids Symposium Series. 37. 75-76 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] Ono,A: "Synthesis of stereoselectively ^<13>C/^2H-doubly labeled DNA oligomers by the combined use of chemical and enzymatic reactions" Nucleic Acids Symposium Series. 37. 73-74 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] Ono,A: "Synthesis of (5′S)-〔5′^2Hi;1′,2′,3′,4′,5′,-^<13>C_5〕-thymidine Via stereoselective deuteration of a 5-oxoribose derivatire" Tetrahedron Letters. 38. 395-398 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] Akira Ono: "Synthesis of (5'S)-[5'-^2H_1 ; 1',2',3',4',5'-^<13>C_5]-Thymidine via Stereoselective Deuteration of a 5-Oxoribose Derivative" Tetrahedron Letters. 38・3. 395-398 (1997)

    • Related Report
      1996 Annual Research Report
  • [Publications] Akira Ono: "Synthesis of (5R)-and (5'S)-[5-^2H_1]-ribonucleosides using asymmetric hydride transfer reaction for 5-formyl ribase" Nucleic Acids Symposium Series No.35. 35. 73-74 (1996)

    • Related Report
      1996 Annual Research Report
  • [Publications] Toko Shiina: "Structural analysis of DNA by isotope-aided NMR : application of ^<13>C/^2H-doubly labeled DNA oligomers" Nucleic Acids Symposium Series. 35. 17-18 (1996)

    • Related Report
      1996 Annual Research Report
  • [Publications] Shin Kataoka: "NMR spectral and structural studies of an RNA hairpin by specific isotope labeling method" Nucleic Acids Symposium Series. 35. 93-94 (1996)

    • Related Report
      1996 Annual Research Report
  • [Publications] Yu Oogo: "Synthesis of 5'-monodeuterated nucleosides from glucose with various [(5'S)-^2H_1]/[(5'R)-^2H_1]-ratios" Nucleic Acids Symposium Series. 35. 77-78 (1996)

    • Related Report
      1996 Annual Research Report

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Published: 1996-04-01   Modified: 2016-04-21  

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