Structure-function correlation of disease-related functional RNA
Project/Area Number |
18370046
|
Research Category |
Grant-in-Aid for Scientific Research (B)
|
Allocation Type | Single-year Grants |
Section | 一般 |
Research Field |
Structural biochemistry
|
Research Institution | Yokohama City University |
Principal Investigator |
KATAHIRA Masato Yokohama City University, International Graduate School of Arts and Sciences, Professor (70211844)
|
Project Period (FY) |
2006 – 2007
|
Project Status |
Completed (Fiscal Year 2007)
|
Budget Amount *help |
¥15,320,000 (Direct Cost: ¥14,000,000、Indirect Cost: ¥1,320,000)
Fiscal Year 2007: ¥5,720,000 (Direct Cost: ¥4,400,000、Indirect Cost: ¥1,320,000)
Fiscal Year 2006: ¥9,600,000 (Direct Cost: ¥9,600,000)
|
Keywords | multi-drug resistance / anti-cancer dru / aptamer / Rev / 4'-thioDNA / Vault / C型肝炎 / 構造 / IRES / 薬剤耐性 / NMR / RNA |
Research Abstract |
Vault particle is related to multi-drug resistance. We found that RNA component of the vault (vault RNA)binds to anti-cancer drug, mitoxantrone. On the basis of chemical shift perturbation with NMR, we found that vault RNA binds to several other anti-cancer drugs. The binding site for drugs was also identified. By blocking the binding site with its complementary oligonucleotide, the trap of drugs by vault. RNA may be suppressed, which could lead to the overcome of the multi-drug resistance. The aptamer composed of RNA containing the Rev-responsive element and the Rev peptide was developed by our collaborator, Professor Morii of Kyoto University. We analyzed the structure of this aptamer in complex with its ligand. The formation of new hydrogen bonds was observed for RNA upon the binding of the Rev peptide and the ligand, respectively. The secondary structure of RNA was deduced. The structure determination of the aptamer is in progress. It was reported that DNA composed of the 4'-thiodeoxyriboses, 4'-thioDNA, exhibits remarkable features. Particularly, 4'-thioDNA is resistant to cleavage by DNase I. We determined the structure of 4'-thioDNA by NMR. DNA usually takes on B-form. 4'-thioDNA, however, takes on A-form which is the form for RNA. DNase I binds to DNA through the interaction at the narrow and relatively deep minor groove of the B-form. The minor groove of 4'-thioDNA is wide and shallow, which is characteristic to A-form, and is not suitable for the binding of DNase I. The other remarkable features of 4'-thioDNA were also interpreted on the basis of the determined structure.
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Report
(3 results)
Research Products
(75 results)
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[Journal Article] Unexpected A-form formation of 4'-thioDNA insolution,revealed by NMR,and the implications as to the mechanism of nuclease-resistance2008
Author(s)
Matsugami, A., Ohyama, T., Inada, M., moue, N., Minakawa, N., Matsuda, A., Katahira, M.
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Journal Title
Nucleic Acids Res 36
Pages: 1805-1812
Description
「研究成果報告書概要(和文)」より
Related Report
Peer Reviewed
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[Journal Article] Unexpected A-form formation of 4'-thioDNA in solution, revealed by NMR, and the implications as to the mechanism of nuclease-resistance2008
Author(s)
Matsugami, A., Ohyama, T., Inada, M., Inoue, N., Minakawa, N., Matsuda, A., Katahira, M
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Journal Title
Nucleic Acids Res 36
Pages: 1805-1812
Description
「研究成果報告書概要(欧文)」より
Related Report
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[Journal Article] Unexpected A-form formation of 4'-thioDNA in solution, revealed by NMR, and the implications as to the mechanism of nuclease-resistance2008
Author(s)
Matsugami, A., Ohyama, T., Inada, M., Inoue, N., Minakawa, N., Matsuda, A., Katahira, M.
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Journal Title
Nucleic Acids Res. 36
Pages: 1805-1812
Related Report
Peer Reviewed
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[Journal Article] Structural analysis of the fundamental polymer of the sheath constructed by Sphaerotilus natans2007
Author(s)
Takeda., M., Miyanoiri, Y., Nogami, T., Oda, K., Saito, T., Kato, K., Koizumi, J.I., Katahira, M.
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Journal Title
Biosci.Biotechnol.Biochem 71
Pages: 2992-2998
NAID
Description
「研究成果報告書概要(和文)」より
Related Report
Peer Reviewed
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[Journal Article] Interactions with RNA/DNA of proteins involved in the regulation of transcription,translation and telomere elongation2007
Author(s)
Ohyama, T., Furukawa, A., Miyoshi, T., Takada, Y., OhgaraS., Hiratsuka, K., Ixnai, T., Okano, H., Nakagama, H., Nagata, T. and Katahira, M.
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Journal Title
Nucleic Acids Symp.Ser No.51
Pages: 77-78
Description
「研究成果報告書概要(和文)」より
Related Report
Peer Reviewed
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[Journal Article] Structure of 4'-thioDNA which exhibits endonuclease resistance2007
Author(s)
Matsugami A., Ohyama, T., Inada, M., moue, N., Minakawa, N., Matsuda, A. and Katahira, M.
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Journal Title
Nucleic Acids Symp.Ser No.51
Pages: 141-142
Description
「研究成果報告書概要(和文)」より
Related Report
Peer Reviewed
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[Journal Article] Structure of human telomeric DNA under physiological ionic conditions stabilized by proper incorporation of 8-bromoguanosines, as determined by NMR2007
Author(s)
Matsugami, M., Xu, Y., Noguchi, Y., Sugiyama, H., Katahira, M
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Journal Title
FEBS J 274
Pages: 3545-3556
Description
「研究成果報告書概要(欧文)」より
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[Journal Article] Structural analysis of the fundamental polymer of the sheath constructed by Sphaerotilus natans2007
Author(s)
Takeda, M., Miyanoiri, Y., Nogami, T., Oda, K., Saito, T., Kato, K., Koizumi, J. I., Katahira, M
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Journal Title
Biosci. Biotechnol. Biochem 71
Pages: 2992-2998
NAID
Description
「研究成果報告書概要(欧文)」より
Related Report
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[Journal Article] Interactions with RNA/DNA of proteins involved in the regulation of transcription, translation and telomere elongation2007
Author(s)
Ohyama, T., Furukawa, A., Miyoshi, T., Takada, Y., Ohgara, S., Hiratsuka, K., Imai, T., Okano, H., Nakagama, H., Nagata, T., Katahira, M
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Journal Title
Nucleic Acids Symp. Ser 51
Pages: 77-78
Description
「研究成果報告書概要(欧文)」より
Related Report
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[Journal Article] Structure of 4'-thioDNA which exhibits endonuclease resistance2007
Author(s)
Matsugami, A., Ohyama, T., Inada, M., Inoue, N., Minakawa, N., Matsuda, A., Katahira, M
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Journal Title
Nucleic Acids Symp. Ser 51
Pages: 141-142
Description
「研究成果報告書概要(欧文)」より
Related Report
-
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[Journal Article] Structural analysis of the fundamental polymer of the sheath constructed by Sphaerotilus natans2007
Author(s)
Takeda, M., Miyanoiri, Y., Nogami, T., Oda, K., Saito, T., Kato, K., Koizumi, J. I., Katahira, M.
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Journal Title
Biosci. Biotechnol. Biochem. 71
Pages: 2992-2998
NAID
Related Report
Peer Reviewed
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[Journal Article] Interactions with RNA/DNA of proteins involved in the regulation of transcription, translation and telomere elongation2007
Author(s)
Ohyama, T., Furukawa, A., Miyoshi, T., Takada, Y., Ohgara, S., Hiratsuka, K., Imai, T., Okano, H., Nakagama, H., Nagata, T. and Katahira, M.
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Journal Title
Nucleic Acids Symp. Ser. 51
Pages: 77-78
Related Report
Peer Reviewed
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[Journal Article] Structure of 4'-thioDNA which exhibits endonuclease resistance2007
Author(s)
Matsugami A., Ohyama, T., Inada, M., Inoue, N., Minakawa, N., Matsuda, A. and Katahira, M.
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Journal Title
Nucleic Acids Symp. Ser. 51
Pages: 141-142
Related Report
Peer Reviewed
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[Journal Article] Molecular mechanism for maintenance of G-rich short tandem repeats capable of adopting G4 DNA structures2006
Author(s)
Nakagama, H., Higuchi, K., Tanaka, E., Tsuchiya, N., Nakashima, K., Katahira, M. and Fukuda, H.
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Journal Title
Mutat.Res 598
Pages: 120-131
Description
「研究成果報告書概要(和文)」より
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Peer Reviewed
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[Journal Article] Structural property of DNA that migrates faster in gelelectrophoresis,as deduced by CD spectroscopy2006
Author(s)
Matsugami, A., Tani, K., Ouhashi, K., Uesugi, S., Morita, M., Ohyama, T. and Katahira M.
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Journal Title
Nucleosides, Nucleotides and Nucleic Acids 25
Pages: 417-425
Description
「研究成果報告書概要(和文)」より
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[Journal Article] Identification of 2-(cysteinyl)amido-2-deoxy-D-galacturonic acidresidue from the sheath of Leptothrix cholodnii2006
Author(s)
Makita, H., Nakahara, Y., Fukui, H., Miyanoiri, Y., Katahira, M., Seki, H., Takeda, M.and Koizumi, J.
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Journal Title
Biosci.Biotech.& Biochem 70
Pages: 1265-1268
NAID
Description
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[Journal Article] Unichrom,a novel nuclear matrix protein,binds to the Ars insulator and canonical MARs2006
Author(s)
Tagashira, H., Shimotori, T., Sakamoto, N., Katahira, M., Miyanoiri, Y., Yamamoto, T., Mitsunaga-Nakatsubo K., Kusunoki, S.and Akasaka, K.
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Journal Title
Zoological Science 23
Pages: 9-21
NAID
Description
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[Journal Article] Structural analysis of DNA containing(6-4)photoproduct in complex with distamycin A by NMR2006
Author(s)
Tsuchibayashi, H., Ohyama, T., Matsugami, A., Nanjo, T., Iwai, S. and Katahira, M.
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Journal Title
Nucleic Acids Symp.Ser No.50
Pages: 237-238
Description
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Peer Reviewed
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[Journal Article] The new models of the human telomere DNA in K^+ solution revealed by NMR analysis assisted by the incorporation of 8-bromoguanines2006
Author(s)
Matsugami, A., Tsuchibayashi, H., Xu, Y., Noguchi, Y., Sugiyama, H. and Katahira, M.
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Journal Title
Nucleic Acids Symp.Ser No.50
Pages: 42-43
Description
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Related Report
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[Journal Article] Molecular mechanism for maintenance of G-rich short tandem repeats capable of adopting G4 DNA structures2006
Author(s)
Nakagama, H., Higuchi, K., Tanaka, E., Tsuchiya, N., Nakashima, K., Katahira, M., Fukuda, H
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Journal Title
Mutat. Res 598
Pages: 120-131
Description
「研究成果報告書概要(欧文)」より
Related Report
-
[Journal Article] Structural property of DNA that migrates faster in gel electrophoresis, as deduced by CD spectroscopy2006
Author(s)
Matsugami, A., Tani, K., Ouhashi, K., Uesugi, S., Morita, M., Ohyama, T., Katahira, M
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Journal Title
Nucleosides, Nucleotides and Nucleic Acids 25
Pages: 417-425
Description
「研究成果報告書概要(欧文)」より
Related Report
-
[Journal Article] Identification of 2-(cysteinyl)amido-2-deoxy-D-galacturonic acid residue from the sheath of Leptothrix cholodnii2006
Author(s)
Makita, H., Nakahara, Y., Fukui, H., Miyanoiri, Y., Katahira, M., Seki, H., Takeda, M., Koizumi, J
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Journal Title
Biosci. Biotech. & Biochem 70
Pages: 1265-1268
NAID
Description
「研究成果報告書概要(欧文)」より
Related Report
-
[Journal Article] Unichrom, a novel nuclear matrix protein, binds to the Ars insulator and canonical MARs2006
Author(s)
Tagashira, H., Shimotori, T., Sakamoto, N., Katahira, M., Miyanoiri, Y., Yamamoto, T., Mitsunaga-Nakatsubo K., Kusunoki, S., Akasaka, K
-
Journal Title
Zoological Science 23
Pages: 9-21
NAID
Description
「研究成果報告書概要(欧文)」より
Related Report
-
[Journal Article] Structural analysis of DNA containing (6-4) photoproduct in complex with distamycin A by NMR2006
Author(s)
Tsuchibayashi, H., Ohyama, T., Matsugami, A., Nanjo, T., Iwai, S., Katahira, M
-
Journal Title
Nucleic Acids Symp. Ser 50
Pages: 237-238
Description
「研究成果報告書概要(欧文)」より
Related Report
-
[Journal Article] The new models of the human telomere DNA in K+ solution revealed by NMR analysis assisted by the incorporation of 8-bromoguanines2006
Author(s)
Matsugami, A., Tsuchibayashi, H., Xu, Y., Noguchi, Y., Sugiyama, H., Katahira, M
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Journal Title
Nucleic Acids Symp. Ser 50
Pages: 42-43
Description
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Related Report
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[Presentation] Structures and interactions of 4'-thioDNA and RNA/DNA-binding proteins2008
Author(s)
Ohyama, T., Furukawa, A., Takada, Y., Ono, A., Matsugami, A., Mashima, T., Nagata, T.and Katahira, M.
Organizer
XXIII International Conference on Magnetic Resonance in Biological Systems
Place of Presentation
アメリカ
Year and Date
2008-08-26
Description
「研究成果報告書概要(和文)」より
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[Presentation] Structure determination of amulti-domain protein by the use of PRE and RDC,and the unexpected A-form structure of 4'-thioDNA exhibiting nuclease-resistance2008
Author(s)
Ohyama, T., Furukawa, A., Matsugami, A., Mashima, T., Nagata, T. and Katahira, M.
Organizer
Korea-Japan Symposiumon Biological NMR
Place of Presentation
韓国
Year and Date
2008-04-25
Description
「研究成果報告書概要(和文)」より
Related Report
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[Presentation] Structure determination of a multi-domain protein by the use of PRE and RDC, and the unexpected A-form structure of 4'-thioDNA exhibiting nuclease-resistance2008
Author(s)
Ohyama, T., Furukawa, A., Matsugami, A., Mashima, T., Nagata, T., Katahira, M
Organizer
Korea-Japan Symposium on Biological NMR
Description
「研究成果報告書概要(欧文)」より
Related Report
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[Presentation] Structures and interactions of 4'-thioDNA and RNA/DNA-binding proteins2008
Author(s)
Ohyama, T., Furukawa, A., Takada, Y., Ono, A., Matsugami, A., Mashima, T., Nagata, T., Katahira, M
Organizer
XXIII International Conference on Magnetic Resonance in Biological Systems
Description
「研究成果報告書概要(欧文)」より
Related Report
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[Presentation] The structure of human telomeric DNA and the interactions of hnRNP A1/hnRNPD proteins with telomeric DNA2007
Author(s)
Matsugami, A., Ohyama, T., Ono, A., Ono, M., Nagata, T.and Katahira, M.
Organizer
International Workshop on Perspectives on Stable Isotope Aided NMR Methods for Protein Structural Analvsis
Place of Presentation
大阪
Year and Date
2007-03-31
Description
「研究成果報告書概要(和文)」より
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[Presentation] (Structural studies on transcriptional and post-transcriptional generegulation by NMR2007
Author(s)
Nagata, T., Ohyama, T., Noto, K., Niyada, E., Miyanoiri, Y., Imai, T., Okano, H., Hiratsuka, K., Katahira, M.
Organizer
International Workshop on Perspectives on Stable Isotope Aided NMR Methods for Protein Structural Analysis
Place of Presentation
大阪
Year and Date
2007-03-30
Description
「研究成果報告書概要(和文)」より
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[Presentation] The structure of human telomeric DNA and the interactions of hnRNP A1 /hnRNP D proteins with telomeric DNA2007
Author(s)
Matsugami, A., Ohyama, T., Ono, A., Ono, M., Nagata, T., Katahira, M
Organizer
International Workshop on Perspectives on Stable Isotope Aided NMR Methods for Protein Structural Analysis
Description
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[Presentation] Structural studies on transcriptional and post-transcriptional gene regulation by NMR2007
Author(s)
Nagata, T., Ohyama, T., Noto, K., Niyada, E., Miyanoiri, Y., Imai, T., Okano, H., Hiratsuka, K., Katahira, M
Organizer
International Workshop on Perspectives on Stable Isotope Aided NMR Methods for Protein Structural Analysis
Description
「研究成果報告書概要(欧文)」より
Related Report
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[Presentation] Structural studies on the neural RNA-binding protein Musashil in complex with its cognate RNA by NMRi2006
Author(s)
Ohyama, T., Nagata, T., Miyanoiri, Y., Imai, T., Okano, H. and Katahira, M.
Organizer
RNA 2006 Izu-Functional RNAs and Regulatory Machinery
Place of Presentation
伊豆
Year and Date
2006-12-05
Description
「研究成果報告書概要(和文)」より
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[Presentation] Investigations of functional RNA/DNA and RNA/DNA-binding proteins2006
Author(s)
Tsuchibayashi, H., Ohyama, T., Matsugami, A., Miyanoiri, Y., Niyada, E., Nagata, T.and Katahira.M.
Organizer
4th Japan-Taiwan NMR Symposium
Place of Presentation
台湾
Year and Date
2006-10-16
Description
「研究成果報告書概要(和文)」より
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[Presentation] Structures of Musashi in Complex with RNA,Wild and Mutant (Phosphorylation-Mimicking)DNA-Binding Proteins,GT-1,and Telomere DNA in K+ Solution2006
Author(s)
Ohyama, T., Tsuchibayashi, H., Matsugami, A., Miyanoiri, Y., Niyada, E., Nagata, T.and Katahira, M.
Organizer
The Switzerland-Japan Symposium on Structural Biology 2006
Place of Presentation
スイス
Year and Date
2006-09-18
Description
「研究成果報告書概要(和文)」より
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[Presentation] Structures of telomere DNA in K+ solution,Musashi in complex with RNA,and wild and mutant(phosphorylation-mimicking)DNA-binding proteins,GT-12006
Author(s)
Ohyama, T., Tsuchibayashi, H., Matsugami, A., Miyanoiri, Y., Niyada, E., Nagata, T. and Katahira, M.
Organizer
XXII International Conference on Magnetic Resonance in Biological Systems
Place of Presentation
ドイツ
Year and Date
2006-08-22
Description
「研究成果報告書概要(和文)」より
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[Presentation] Wild and mutant(phosphorylation-mimicking)GT-1structures,hnRNP D-telomere DNA complex structure,and Musashi structure complexed with RNA2006
Author(s)
Ohyama, T., Tsuchibayashi, H., Matsugami, A., Miyanoiri, Y., Niyada, E., Enokizono, Y., Nagata, T.and Katahira, M.
Organizer
Korea-Japan Bilateral Symposium on Biological NMR
Place of Presentation
韓国
Year and Date
2006-07-08
Description
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[Presentation] Investigations of functional RNA/DNA and RNA/DNA-binding proteins2006
Author(s)
Tsuchibayashi, H., Ohyama, T., Matsugami, A., Miyanoiri, Y., Niyada, E., Nagata, T., Katahira, M
Organizer
4th Japan-Taiwan NMR Symposium
Description
「研究成果報告書概要(欧文)」より
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[Presentation] Structures of Musashi in Complex with RNA, Wild and Mutant (Phosphorylation-Mimicking) DNA-Binding Proteins, GT-1, and Telomere DNA in K+ Solution2006
Author(s)
Ohyama, T., Tsuchibayashi, H., Matsugami, A., Miyanoiri, Y., Niyada, E., Nagata, T., Katahira, M
Organizer
The Switzerland-Japan Symposium on Structural Biology 2006
Description
「研究成果報告書概要(欧文)」より
Related Report
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[Presentation] Wild and mutant (phosphorylation-mimicking) GT-1 structures, hnRNP D-telomere DNA complex structure, and Musashi structure complexed with RNA2006
Author(s)
Ohyama, T., Tsuchibayashi, H., Matsugami, A., Miyanoiri, Y., Niyada, E., Enokizono, Y., Nagata, T., Katahira, M
Organizer
Korea-Japan Bilateral Symposium on Biological NMR
Description
「研究成果報告書概要(欧文)」より
Related Report
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[Presentation] Structures of telomere DNA in K+ solution, Musashi in complex with RNA, and wild and mutant (phosphorylation-mimicking) DNA-binding proteins, GT-12006
Author(s)
Ohyama, T., Tsuchibayashi, H., Matsugami, A., Miyanoiri, Y., Niyada, E., Nagata, T., Katahira, M
Organizer
XXII International Conference on Magnetic Resonance in Biological Systems
Description
「研究成果報告書概要(欧文)」より
Related Report
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[Presentation] Structural studies on the neural RNA-binding protein Musashil in complex with its cognate RNA by NMRi2006
Author(s)
Ohyama, T., Nagata, T., Miyanoiri, Y., Imai, T., Okano, H., Katahira, M
Organizer
RNA 2006 Izu -Functional RNAs and Regulatory Machinery-
Description
「研究成果報告書概要(欧文)」より
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[Book] RNA2007
Author(s)
片平 正人
Total Pages
662
Publisher
朝倉書店
Description
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[Book] 紫外吸収スペクトル2007
Author(s)
大山 貴子、松上 明正、片平 正人
Publisher
羊土社
Description
「研究成果報告書概要(和文)」より
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