Výsledky vyhledávání - "Daichi Yamanaka"

Akademický článek

Physicochemical Characterization of the Catalytic Unit of Hammerhead Ribozyme and Its Relationship with the Catalytic Activity

Autor: Yoshiyuki Tanaka, Daichi Yamanaka, Saori Morioka, Taishi Yamaguchi, Masayuki Morikawa, Takashi S. Kodama, Vladimír Sychrovský, Chojiro Kojima, Yoshikazu Hattori

Publikováno v: Biophysica, Vol 2, Iss 3, Pp 221-239 (2022)

The catalytic mechanism of hammerhead ribozymes (HHRzs) attracted great attention in relation to the chemical origin of life. However, the basicity (pKa) of the catalytic sites of HHRzs has not been studied so far. As a result, the investigation of t

Externí odkaz: https://doaj.org/article/4c134b0657e842748d786bc8aeb18731

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Akademický článek

NMR spectroscopic characterization of a model RNA duplex reflecting the core sequence of hammerhead ribozymes.

Autor: Yoshikazu Hattori¹, Daichi Yamanaka², Saori Morioka¹, Taishi Yamaguchi¹, Honoka Tomonari¹, Chojiro Kojima^3,4, Yoshiyuki Tanaka^1,2 tanakay@ph.bunri-ac.jp

Publikováno v: Nucleosides, Nucleotides & Nucleic Acids. 2018, Vol. 37 Issue 7, p383-396. 14p.

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NMR spectroscopic characterization of a model RNA duplex reflecting the core sequence of hammerhead ribozymes

Autor: Daichi Yamanaka, Chojiro Kojima, Taishi Yamaguchi, Saori Morioka, Yoshikazu Hattori, Yoshiyuki Tanaka, Honoka Tomonari

Publikováno v: Nucleosides, Nucleotides & Nucleic Acids. 37:383-396

Hammerhead ribozymes are a model system for studying molecular mechanism of RNA catalysis. Physicochemical data-driven mechanistic studies are an indispensable step towards understanding the catalysis of hammerhead ribozymes. Here we characterized a

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::292e83dd02ba834d2bd4be3725114e78
https://doi.org/10.1080/15257770.2018.1473877

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Direct detection of the mercury-nitrogen bond in the thymine-Hg-II-thymine base-pair with Hg-199 NMR spectroscopy

Autor: Célia Fonseca Guerra, Yoshinori Kondo, Shoko Kikkawa, Kyoko Furuita, Akira Ono, Vladimír Sychrovský, Takenori Dairaku, Ritsuko Katahira, Yoshiyuki Tanaka, F. Matthias Bickelhaupt, Hiroyuki Otaki, Chojiro Kojima, Jakub Šebera, Hajime Sato, Daichi Yamanaka

Publikováno v: Chemical Communications, 51, 8488-8491
Dairaku, T, Furuita, K, Sato, H, Sebera, J, Yamanaka, D, Otaki, H, Kikkawa, S, Kondo, Y, Katahira, R, Bickelhaupt, F M, Guerra, C F, Ono, A, Sychrovsky, V, Kojima, C & Tanaka, Y 2015, ' Direct detection of the mercury-nitrogen bond in the thymine-Hg-II-thymine base-pair with Hg-199 NMR spectroscopy ', Chemical Commununications, vol. 51, no. 40, pp. 8488-8491 . https://doi.org/10.1039/c5cc02423d
Chemical Commununications, 51(40), 8488-8491. Royal Society of Chemistry
Chemical Communications, 51, 40, pp. 8488-8491

We have observed the 1-bond (199)Hg-(15)N J-coupling ((1)J((199)Hg,(15)N) = 1050 Hz) within the Hg(II)-mediated thymine-thymine base pair (T-Hg(II)-T). This strikingly large (1)J((199)Hg,(15)N) is the first one for canonical sp(2)-nitrogen atoms, whi

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::fb84855a7b3a1978ec8f87f99f53715d
https://hdl.handle.net/1871.1/64fa8b75-021f-4c25-9c1b-0acefc807863

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Preparation of Ga-terminated negative electron affinity-GaAs (100) surface by HCl-isopropanol treatment for nanoanalysis by scanning tunneling microscopy

Autor: Ryutaro Fukuzoe, Takashi Meguro, Youta Iwabuchi, Hokuto Iijima, Daichi Yamanaka, Masayuki Hirao

Publikováno v: Journal of Vacuum Science & Technology B. 36:06JK01

Negative electron affinity (NEA) surfaces can emit electrons by low-energy light illumination that is nearly equal to the bandgap energy of a semiconductor because NEA surfaces lower the vacuum level to below the conduction-band minimum. In particula

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::78c6ab717cb86ac349c9698cde8c5476
https://doi.org/10.1116/1.5048060

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Structure Determination of an Ag(I) -Mediated Cytosine-Cytosine Base Pair within DNA Duplex in Solution with (1) H/(15) N/(109) Ag NMR Spectroscopy

Autor: Hajime Sato, Jiro Kondo, Kyoko Furuita, Akira Ono, Daichi Yamanaka, Yoshiyuki Tanaka, Itaru Okamoto, Katsuyuki Nakashima, Yoshinori Kondo, Takenori Dairaku, Chojiro Kojima, Jakub Šebera, Vladimír Sychrovský

Publikováno v: Chemistry (Weinheim an der Bergstrasse, Germany). 22(37)

The structure of an Ag(I) -mediated cytosine-cytosine base pair, C-Ag(I) -C, was determined with NMR spectroscopy in solution. The observation of 1-bond (15) N-(109) Ag J-coupling ((1) J((15) N,(109) Ag): 83 and 84 Hz) recorded within the C-Ag(I) -C

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f21c7ca9f15ea96aa3a218ca0ad38411
https://pubmed.ncbi.nlm.nih.gov/27505707

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Site-specific isotope labeling of long RNA for structural and mechanistic studies

Autor: Yuta Ashihara, Yoshiya Ikawa, Daichi Yamanaka, Kenta Teruya, Chojiro Kojima, Yoshinori Kondo, Naoko Toki, Kaichiro Haruta, Mituhiro Kuriyama, Yoshiyuki Tanaka, Junya Ishikawa, Ikumi Kawahara, Hiroyuki Furuta

Publikováno v: Nucleic Acids Research

A site-specific isotope labeling technique of long RNA molecules was established. This technique is comprised of two simple enzymatic reactions, namely a guanosine transfer reaction of group I self-splicing introns and a ligation with T4 DNA ligase.

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ec49a65428849c1bb03da3af70b44c61
https://pubmed.ncbi.nlm.nih.gov/22080547

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