Faculty Profiles - AIBA Yuichiro

Papers - AIBA Yuichiro

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Catalytic Oxidation of Methane by Wild-Type Cytochrome P450BM3 with Chemically Evolved Decoy Molecules Reviewed International journal

Ariyasu, S; Yonemura, K; Kasai, C; Aiba, Y; Onoda, H; Shisaka, Y; Sugimoto, H; Tosha, T; Kubo, M; Kamachi, T; Yoshizawa, K; Shoji, O

ACS CATALYSIS Vol. 13 ( 13 ) page： 8613 - 8623 2023.6

A Compound I Mimic Reveals the Transient Active Species of a Cytochrome P450 Enzyme: Insight into the Stereoselectivity of P450-Catalysed Oxidations Reviewed International journal

Suzuki, K; Stanfield, JK; Omura, K; Shisaka, Y; Ariyasu, S; Kasai, C; Aiba, Y; Sugimoto, H; Shoji, O

ANGEWANDTE CHEMIE-INTERNATIONAL EDITION Vol. 62 ( 13 ) page： e202215706 2023.3

Biological and Medicinal Chemistry Search within Biological and Medicinal Chemistry Sequence-Specific Recognition of Double-Stranded DNA by Using Only PNAs in Parallel with Natural Nucleobases International journal

Masanari Shibata,Yuichiro Aiba, Masaki Hibino,Osami Shoji

ChemRxiv 2022.9

A P450 Harboring Manganese Protoporphyrin IX Generates a Manganese Analogue of Compound I by Activating Dioxygen Reviewed International journal

Omura, K; Aiba, Y; Suzuki, K; Ariyasu, S; Sugimoto, H; Shoji, O

ACS CATALYSIS Vol. 12 ( 18 ) page： 11108 - 11117 2022.8

Sequence-Specific Recognition of Double-Stranded DNA by Peptide Nucleic Acid Forming Double-Duplex Invasion Complex Reviewed International journal

Aiba, Y; Shibata, M; Shoji, O

APPLIED SCIENCES-BASEL Vol. 12 ( 7 ) page： 3667 2022.4

C9orf72-derived arginine-rich poly-dipeptides impede phase modifiers Reviewed International journal

Nanaura, H; Kawamukai, H; Fujiwara, A; Uehara, T; Aiba, Y; Nakanishi, M; Shiota, T; Hibino, M; Wiriyasermkul, P; Kikuchi, S; Nagata, R; Matsubayashi, M; Shinkai, Y; Niwa, T; Mannen, T; Morikawa, N; Iguchi, N; Kiriyama, T; Morishima, K; Inoue, R; Sugiyama, M; Oda, T; Kodera, N; Toma-Fukai, S; Sato, M; Taguchi, H; Nagamori, S; Shoji, O; Ishimori, K; Matsumura, H; Sugie, K; Saio, T; Yoshizawa, T; Mori, E

NATURE COMMUNICATIONS Vol. 12 ( 1 ) page： 5301 2021.9

Investigation of the Characteristics of NLS-PNA: Influence of NLS Location on Invasion Efficiency Reviewed International journal

Aiba, Y; Urbina, G; Shibata, M; Shoji, O

APPLIED SCIENCES-BASEL Vol. 10 ( 23 ) page： 8663 2020.12

Cationic guanine: positively charged nucleobase with improved DNA affinity inhibits self-duplex formation Reviewed International journal

Hibino Masaki, Aiba Yuichiro, Shoji Osami

CHEMICAL COMMUNICATIONS Vol. 56 ( 17 ) page： 2546 - 2549 2020.2

Peptide Nucleic Acid Conjugated with Ruthenium-Complex Stabilizing Double-Duplex Invasion Complex Even under Physiological Conditions Reviewed International journal

Hibino Masaki, Aiba Yuichiro, Watanabe Yoshihito, Shoji Osami

CHEMBIOCHEM Vol. 19 ( 15 ) page： 1601 - 1604 2018.8

Reconstitution of full-length P450BM3 with an artificial metal complex by utilising the transpeptidase Sortase A Reviewed International journal

Omura Keita, Aiba Yuichiro, Onoda Hiroki, Stanfield Joshua Kyle, Ariyasu Shinya, Sugimoto Hiroshi, Shiro Yoshitsugu, Shoji Osami, Watanabe Yoshihito

CHEMICAL COMMUNICATIONS Vol. 54 ( 57 ) page： 7892 - 7895 2018.7

Heme-substituted protein assembly bridged by synthetic porphyrin: achieving controlled configuration while maintaining rotational freedom. Reviewed International journal

Inaba H, Shisaka Y, Ariyasu S, Sakakibara E, Ueda G, Aiba Y, Shimizu N, Sugimoto H, Shoji O

Vol. 14 ( 13 ) page： 8829 - 8836 2024.3

Highly selective hydroxylation of gaseous alkanes at the terminal position by wild-type CYP153A33 Reviewed International journal

Kodama, Y; Ariyasu, S; Karasawa, M; Aiba, Y; Shoji, O

Vol. 13 ( 21 ) page： 6146 - 6152 2023.10

Expanding the applicability of cytochrome P450s and other haemoproteins Reviewed International journal

Ariyasu, S; Stanfield, JK; Aiba, Y; Shoji, O

CURRENT OPINION IN CHEMICAL BIOLOGY Vol. 59 page： 155 - 163 2020.12

Systematic Evolution of Decoy Molecules for the Highly Efficient Hydroxylation of Benzene and Small Alkanes Catalyzed by Wild-Type Cytochrome P450BM3 Reviewed International journal

Yonemura, K; Ariyasu, S; Stanfield, JK; Suzuki, K; Onoda, H; Kasai, C; Sugimoto, H; Aiba, Y; Watanabe, Y; Shoji, O

ACS CATALYSIS Vol. 10 ( 16 ) page： 9136 - 9144 2020.8

Molecular Design and Regulation of Metalloenzyme Activities through Two Novel Approaches: Ferritin and P450s Reviewed International journal

Watanabe Yoshihito, Aiba Yuichiro, Ariyasu Shinya, Abe Satoshi

BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN Vol. 93 ( 3 ) page： 379 - 392 2020.3

Toxic PR poly-dipeptides encoded by the C9orf72 repeat expansion target Kapβ2 and dysregulate phase separation of low-complexity domains. International journal

H. Nanaura, H. Kawamukai, A. Fujiwara, T. Uehara, M. Nakanishi, T. Shiota, M. Hibino, Y. Aiba, P. Wiriyasermkul, S. Kikuchi, R. Nagata, M. Matsubayashi, S. Nagamori, O. Shoji, K. Ishimori, H. Matsumura, K. Sugie, T. Saio, T. Yoshizawa, and E. Mori

bioRxiv 2019.10

Development of a High-Pressure Reactor Based on Liquid-Flow Pressurisation to Facilitate Enzymatic Hydroxylation of Gaseous Alkanes Reviewed International journal

Ariyasu Shinya, Kodama Yusaku, Kasai Chie, Cong Zhiqi, Stanfield Joshua Kyle, Aiba Yuichiro, Watanabe Yoshihito, Shoji Osami

CHEMCATCHEM Vol. 11 ( 19 ) page： 4709 - 4714 2019.10

Hoodwinking Cytochrome P450BM3 into Hydroxylating Non-Native Substrates by Exploiting Its Substrate Misrecognition Reviewed International journal

Shoji Osami, Aiba Yuichiro, Watanabe Yoshihito

ACCOUNTS OF CHEMICAL RESEARCH Vol. 52 ( 4 ) page： 925 - 934 2019.4

Reconstitution of self-sufficient cytochrome P450 with artificial metal complexes Reviewed

Omura Keita, Aiba Yuichiro, Ariyasu Shinya, Shoji Osami, Sugimoto Hiroshi, Shiro Yoshitsugu, Watanabe Yoshihito

ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY Vol. 255 page： . 2018.3

Transfection of PNA-NLS Conjugates into Human Cells Using Partially Complementary Oligonucleotides Reviewed

Aiba, Yuichiro, Ohyama, Junpei, Komiyama, Makoto

Chemistry Letters Vol. 44 ( 11 ) page： 1547 - 1549 2015.11

Promotion of Double-Duplex Invasion of Peptide Nucleic Acids through Conjugation with Nuclear Localization Signal Peptide Reviewed

Aiba Yuichiro, Honda Yuta, Komiyama Makoto

CHEMISTRY-A EUROPEAN JOURNAL Vol. 21 ( 10 ) page： 4021 - 4026 2015.3

Exploring the Effect of Sequence Length and Composition on Allele-Selective Inhibition of Human Huntingtin Expression by Single-Stranded Silencing RNAs Reviewed

Hu Jiaxin, Liu Jing, Yu Dongbo, Aiba Yuichiro, Lee Suheung, Pendergraff Hannah, Boubaker Jihane, Artates Jonathan W., Lagier-Tourenne Clotilde, Lima Walt F., Swayze Eric E., Prakash Thazha P., Corey David R.

NUCLEIC ACID THERAPEUTICS Vol. 24 ( 3 ) page： 199 - 209 2014.6

Allele-Selective Inhibition of Expression of Huntingtin and Ataxin-3 by RNA Duplexes Containing Unlocked Nucleic Acid Substitutions Reviewed

Aiba Yuichiro, Hu Jiaxin, Liu Jing, Xiang Qin, Martinez Carlos, Corey David R.

BIOCHEMISTRY Vol. 52 ( 51 ) page： 9329 - 9338 2013.12

ss-siRNAs allele selectively inhibit ataxin-3 expression: multiple mechanisms for an alternative gene silencing strategy Reviewed

Liu Jing, Yu Dongbo, Aiba Yuichiro, Pendergraff Hannah, Swayze Eric E., Lima Walt F., Hu Jiaxin, Prakash Thazha P., Corey David R.

NUCLEIC ACIDS RESEARCH Vol. 41 ( 20 ) page： 9570 - 9583 2013.11

Site-selective Scission of Double-stranded DNA by Combining a Triplex-forming bis-PNA and Ce(IV)/EDTA Reviewed

Aiba Yuichiro, Yasuda Kohei, Komiyama Makoto

CHEMISTRY LETTERS Vol. 42 ( 10 ) page： 1300 - 1302 2013.10

PNA-NLS conjugates as single-molecular activators of target sites in double-stranded DNA for site-selective scission Reviewed International coauthorship

Aiba Yuichiro, Hamano Yuya, Kameshima Wataru, Araki Yasuyuki, Wada Takehiko, Accetta Alessandro, Sforza Stefano, Corradini Roberto, Marchelli Rosangela, Komiyama Makoto

ORGANIC & BIOMOLECULAR CHEMISTRY Vol. 11 ( 32 ) page： 5233 - 5238 2013.8

Artificial site-selective DNA cutters to manipulate single-stranded DNA Reviewed

Aiba Yuichiro, Komiyama Makoto

POLYMER JOURNAL Vol. 44 ( 9 ) page： 929 - 938 2012.9

Introduction of multiphosphonate ligand to peptide nucleic acid for metal ion conjugation. Reviewed

Aiba Yuichiro, Honda Yuta, Han Y, Komiyama Makoto

Artificial DNA, PNA & XNA Vol. 3 ( 2 ) page： 73 - 9 2012.4

Nanomechanical DNA origami devices as versatile molecular sensors Reviewed

Kuzuya Akinori, Yamazaki Takahiro, Yasuda Kohei, Sakai Yusuke, Yamanaka Yusei, Xu Yan, Aiba Yuichiro, Ohya Yuichi, Komiyama Makoto

IEEE Int. Conf. Nano/Micro Eng. Mol. Syst., 7th page： 318-321 2012

Clear-cut observation of PNA invasion using nanomechanical DNA origami devices Reviewed

Yamazaki Takahiro, Aiba Yuichiro, Yasuda Kohei, Sakai Yusuke, Yamanaka Yusei, Kuzuya Akinori, Ohya Yuichi, Komiyama Makoto

CHEMICAL COMMUNICATIONS Vol. 48 ( 92 ) page： 11361 - 11363 2012

Manipulation of Single-Stranded DNA by Using an Artificial Site-Selective DNA Cutter Composed of Cerium(IV)/EDTA and Phosphonate-Oligonucleotide Conjugates Reviewed International journal

Aiba Yuichiro, Loennberg Tuomas, Komiyama Makoto

CHEMISTRY-AN ASIAN JOURNAL Vol. 6 ( 9 ) page： 2407 - 2411 2011.9

Artificial DNA cutters for DNA manipulation and genome engineering Reviewed

Aiba Yuichiro, Sumaoka Jun, Komiyama Makoto

CHEMICAL SOCIETY REVIEWS Vol. 40 ( 12 ) page： 5657 - 5668 2011

Oxidation of an Oligonucleotide-Bound Ce-III/Multiphosphonate Complex for Site-Selective DNA Scission Reviewed

Loennberg Tuomas, Aiba Yuichiro, Hamano Yuya, Miyajima Yoshitaka, Sumaoka Jun, Komiyama Makoto

CHEMISTRY-A EUROPEAN JOURNAL Vol. 16 ( 3 ) page： 855 - 859 2010

Chemical and enzymatic stability of amino acid derived phosphoramidates of antiviral nucleoside 5 '-monophosphates bearing a biodegradable protecting group Reviewed

Leisvuori Anna, Aiba Yuichiro, Lonnberg Tuomas, Poijarvi-Virta Paivi, Blatt Laurence, Beigelman Leo, Lonnberg Harri

ORGANIC & BIOMOLECULAR CHEMISTRY Vol. 8 ( 9 ) page： 2131 - 2141 2010

Handy and prompt DNA separation using PNA with internal disulfide bond. Reviewed International journal

Aiba Y, Komiyama M

Nucleic acids symposium series (2004) ( 53 ) page： 175 - 6 2009

Introduction of disulfide bond to the main chain of PNA to switch its hybridization and invasion activity Reviewed

Aiba Yuichiro, Komiyama Makoto

ORGANIC & BIOMOLECULAR CHEMISTRY Vol. 7 ( 24 ) page： 5078 - 5083 2009

Introduction of linkers into PNA for versatile applications. Reviewed International journal

Aiba Y, Komiyama M

Nucleic acids symposium series (2004) ( 52 ) page： 143 - 4 2008

Solid-phase synthesis of pseudo-complementary peptide nucleic acids Reviewed International journal

Komiyama Makoto, Aiba Yuichiro, Ishizuka Takumi, Sumaoka Jun

NATURE PROTOCOLS Vol. 3 ( 4 ) page： 646 - 654 2008

Artificial restriction DNA cutter for site-selective scission of double-stranded DNA with tunable scission site and specificity Reviewed International journal

Komiyama Makoto, Aiba Yuichiro, Yamamoto Yoji, Sumaoka Jun

NATURE PROTOCOLS Vol. 3 ( 4 ) page： 655 - 662 2008

Activation of double-stranded DNA by one pcPNA strand for its site-selective scission with Ce-IV/EDTA Reviewed

Aiba Yuichiro, Yamamoto Yoji, Komiyama Makoto

CHEMISTRY LETTERS Vol. 36 ( 6 ) page： 780 - 781 2007.6

Chemical modification of Ce(IV)/EDTA-based artificial restriction DNA cutter for versatile manipulation of double-stranded DNA Reviewed

Yamamoto Yoji, Mori Masao, Aiba Yuichiro, Tomita Takafumi, Chen Wen, Zhou Jing-Min, Uehara Akihiko, Ren Yi, Kitamura Yoshihito, Komiyama Makoto

NUCLEIC ACIDS RESEARCH Vol. 35 ( 7 ) page： e53 2007.4

Highly active artificial restriction enzyme composed of Ce(IV)/EDTA and PNA bearing phosphate group--relationship between the promotion by phosphate and the structure of invasion complex. Reviewed International journal

Aiba Y, Yamamoto Y, Komiyama M

Nucleic acids symposium series (2004) ( 50 ) page： 255 - 6 2006

Enhancement of RNA cleavage activity of 10-23 DNAzyme by covalently introduced intercalator Reviewed

Asanuma Hiroyuki, Hayashi Hiroyuki, Zhao Jing, Liang Xingguo, Yamazawa Akira, Kuramochi Takeshi, Matsunaga Daijiro, Aiba Yuichiro, Kashida Hiromu, Komiyama Makoto

CHEMICAL COMMUNICATIONS ( 48 ) page： 5062 - 5064 2006

Gene manipulation using artificial restriction DNA cutter. Reviewed International journal

Yamamoto Y, Zhou JM, Tomita T, Uehara A, Aiba Y, Watanabe A, Aburatani H, Komiyama M

Nucleic acids symposium series (2004) ( 49 ) page： 73 - 4 2005

Rapid site-selective hydrolysis of double-stranded DNA by use of Ce(IV)/EDTA and PNA bearing phosphate group. Reviewed International journal

Aiba Y, Mori M, Yamamoto Y, Komiyama M

Nucleic acids symposium series (2004) ( 49 ) page： 277 - 8 2005

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Papers - AIBA Yuichiro