Papers - KAWAKAMI Junji
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A Comparative Study on the Relative Quantification of Oligonucleotide Impurities Using Several Different Types of Liquid Chromatography-Mass Spectrometers at Analytical Facilities of Multiple Institutions Reviewed
Ryutaro Takamine, Takao Yamaguchi, Kenji Hirose, Mitsuaki Sekiguchi, Kaoru Karasawa, Noriyuki Iwasaki, Kentaro Takahara, Hiroshi Sezaki, Yoshihiro Hayakawa, Hiroyuki Togawa, Takashi Okubo, Hiroo Nagano, Amane Sakurai, Nae Sakimoto, Elisa Tomita-Sudo, Tokuyuki Yoshida, Takao Inoue, Satoshi Obika, Junji Kawakami
Pharmaceutical and Medical Device Regulatory Science 57 ( 3 ) 2026.6
Authorship：Last author, Corresponding author
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Current Trends in Liquid Chromatography-Mass Spectrometry Analysis of Small Interfering RNAs: A Short Review Reviewed
Hiroyuki Togawa, Takao Yamaguchi, Junji Kawakami, Satoshi Obika
Journal of Chromatography A 1766 466550 2026.1
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Theoretical calculation of the amounts of nucleotide deletion impurities in oligonucleotides Reviewed
Yasunori Uchida, Tokuyuki Yoshida, Emi Saito, Hirokazu Nankai, Kaoru Karasawa, Chie Inagaki, Noriyuki Iwasaki, Daisuke Higo, Kentaro Takahara, Takashi Osawa, Takao Yamaguchi, Kosuke Ito, Junji Kawakami, Satoshi Obika, Takao Inoue
International Journal of Pharmaceutical 687 126364 2026.1
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Position-dependent stabilization of DNA/RNA duplexes by site-specific incorporation of LNA nucleosides Reviewed
Elisa Tomita-Sudo, Tomoka Akita, Nae Sakimoto, Saori Tahara-Takamine, Renshin Sano, Shigenori Iwai, Junji Kawakami
Journal of Nucleic Acids 2026
Authorship：Last author, Corresponding author
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Effects of N–1-mer impurities in antisense oligonucleotides on the target RNA suppression Reviewed
Tomoka Akita, Elisa Tomita-Sudo, Renshin Sano, Nae Sakimoto, Shigenori Iwai, Hirokazu Nankai, Satoshi Obika, Takao Inoue, Junji Kawakami
Nucleic Acid Therapeutics 2026
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Effects of acid-mediated deamination of cytidine and 5-methylcytidine on solid-phase synthesis of oligonucleotides Reviewed
Yusuke Isono, Chihiro Karasugi, Takuya Akisawa, Takashi Osawa, Qin Ren, Michiaki Tatsuno, Fumi Ito, Takao Inoue, Junji Kawakami, Satoshi Obika, Masaki Shinoda
Tetrahedron 185 134840 - 134840 2025.10
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Functional analysis of histidine-dependent self-cleaving RNAs obtained by in vitro selection Reviewed
Nae Sakimoto, Shoichiro Tanaka, Riki Hatakenaka, Yoshie Yamaguchi-Miyazaki, Elisa Tomita-Sudo, Tomoka Akita, Taku Ishigaki, Shigenori Iwai, Junji Kawakami
ChemBioChem e202500411 2025.9
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Bioinformatic Analysis of Actin-Binding Proteins in the Nucleolus During Heat Shock Reviewed
Shinya Taniguchi, Takeru Torii, Yoshiyuki Goto, Kohei Takeuchi, Rine Katsumi, Mako Sumida, Sunmin Lee, Wataru Sugimoto, Masaya Gessho, Katsuhiko Itoh, Hiroaki Hirata, Junji Kawakami, Daisuke Miyoshi, Keiko Kawauchi
Genes 15 1580 2024.12
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Sequence-Specific Free Energy Changes in DNA/RNA Induced by a Single LNA-T Modification in Antisense Oligonucleotides Reviewed
Elisa Tomita-Sudo, Tomoka Akita, Nae Sakimoto, Saori Tahara-Takamine, Junji Kawakami
International Journal of Molecular Sciences 25 13240 2024.12
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L-Histidine Modulates the Catalytic Activity and Conformational Changes of the HD3 Deoxyribozyme Reviewed
Nae Sakimoto, Hirofumi Imanaka, Elisa Tomita-Sudo, Tomoka Akita, Junji Kawakami
Genes 15 1481 2024.11
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Detection of Conformational Changes of G4 Aptamer in the Presence of Different Cations using Calorimetry Reviewed
Elisa Tomita-Sudo, Taku Ishigaki, Masako Hirose, Maki Kato, Junji Kawakami
Netsu Sokutei 51 ( 4 ) 148 - 152 2024.9
Authorship：Last author, Corresponding author
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Separation of the diastereomers of phosphorothioated siRNAs by anion-exchange chromatography under non-denaturing conditions Reviewed
Hiroyuki Togawa, Takashi Okubo, Kazuki Horiuchi, Takao Yamaguchi, Elisa Tomita-Sudo, Tomoka Akita, Junji Kawakami, Satoshi Obika
Journal of Chromatography A 1721 464847 - 464847 2024.4
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Changes in gene expression due to product-related impurities of nucleic acid therapeutics
ISHIDA Kazuya, UCHIDA Yasunori, YOSHIDA Tokuyuki, AKAHORI Yumi, SAITO Emi, NANKAI Hirokazu, KARASAWA Kaoru, INAGAKI Chie, IWASAKI Noriyuki, HIGO Daisuke, TAKAHARA Kentaro, KAWAKAMI Junji, OBIKA Satoshi, INOUE Takao
Annual Meeting of the Japanese Society of Toxicology 51.1 P-302 2024
Publisher：The Japanese Society of Toxicology
Nucleic acid therapeutics contain impurities derived from nucleotide deletion or insertion, such as N-1 (single nucleotide deletion) and N+1 (single nucleotide insertion) impurities. Although they can hybridize with off-target RNAs, it is unclear whether N-1/N+1 impurities alter gene expression and contribute to off-target toxicity.
In this study, we prepared samples of antisense oligonucleotides with varying impurity content. Then, we confirmed the accurate mass corresponding to each N-1/N+1 impurity and determined their relative amount by LC-MS. Next, samples were introduced into human cells for comprehensive gene expression analysis. The results showed that many genes fully complementary to the N-1/N+1 impurities were down-regulated. This was probably caused by the fully complementary binding of the N-1/N+1 impurities and/or the partially complementary binding of the desired product with one nucleotide incompatibility. For some genes, the knockdown efficiency became higher with increasing content of the fully complementary N-1/N+1 impurities, strongly suggesting that the knockdown was caused by the binding of the N-1/N+1 impurities.
These results indicate that N-1/N+1 impurities can change gene expression. Comprehensive gene expression analyses will enable us to estimate the genes whose expression is altered by the binding of the desired product and the N-1/N+1 impurities. By considering the toxicological risk when the expression of these genes is changed, it will be possible to evaluate the risk of the N-1/N+1 impurities together with the desired product. -
Sequencing of Morpholino Antisense Oligonucleotides Using Electron Capture Dissociation Mass Spectrometry Reviewed
Kaoru Karasawa, Eva Duchoslav, Lyle Burton, Junji Kawakami, Takashi Baba
Analytical Chemistry 95 ( 44 ) 16352 - 16358 2023.10
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Mitochondrial Dynamics of Bcl-2 Family Proteins during 17-β-Estradiol-Induced Apoptosis Correlate with the Malignancy of Endometrial Cancer Cells Reviewed
Takahiro Yaguchi, Misaki Kameno, Hirofumi Taira, Junji Kawakami
Biochemstry 62 ( 21 ) 3041 - 3049 2023.10
Authorship：Last author
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Comparison of Analysis Data of Model Oligonucleotide Therapeutics Obtained with Different Types of Liquid Chromatograph-Mass Spectrometers Reviewed
Kenji HIROSE, Tokuyuki YOSHIDA, Maki TERASAKI, Hiroshi SEZAKI, Kaoru KARASAWA, Noriyuki IWASAKI, Kentaro TAKAHARA, Naomi TAKIGUCHI, Mitsuaki SEKIGUCHI, Hirokazu NANKAI, Emi SAITO, Hideaki SATO, Takashi OSAWA, Takao YAMAGUCHI, Kosuke ITO, Junji KAWAKAMI, Satoshi OBIKA, Takao INOUE
Pharmaceutical and Medical Device Regulatory Science 54 ( 5 ) 439 - 454 2023.7
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Not all 2',4'-bridged modifications stabilize DNA/RNA duplexes Reviewed
Tomoka Akita, Elisa Tomita-Sudo, Shin Itoh, Nae Sakimoto, Takeshi Masuda, Akifumi Nakamura, Yoshiyuki Onishi, Makoto Koizumi, Junji Kawakami
Nucleosides, Nucleotides & Nucleic Acids 43 ( 1 ) 57 - 64 2023.3
Authorship：Last author, Corresponding author
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Toshiyuki Goto, Shuhei Torii, Aoi Kondo, Kazumasa Kanda, Junji Kawakami, Yosky Kataoka, Takahito Nishikata
Journal of Developmental Biology 10 ( 1 ) 10 - 10 2022.2
Publisher：MDPI AG
In many animal species, the body axis is determined by the relocalization of maternal determinants, organelles, or unique cell populations in a cytoskeleton-dependent manner. In the ascidian first cell cycle, the myoplasm, including mitochondria, endoplasmic reticulum (ER), and maternal mRNAs, move to the future posterior side concomitantly (called ooplasmic segregation or cytoplasmic and cortical reorganization). This translocation consists of first and second phases depending on the actin and microtubule, respectively. However, the transition from first to second phase, that is, translocation of myoplasmic components from microfilaments to microtubules, has been poorly investigated. In this study, we analyzed the relationship between these cytoskeletons and myoplasmic components during the first cell cycle and their role in morphogenesis by inhibitor experiments. Owing to our improved visualization techniques, there was unexpected F-actin accumulation at the vegetal pole during this transition period. When this F-actin was depolymerized, the microtubule structure was strongly affected, the myoplasmic components, including maternal mRNA, were mislocalized, and the anteroposterior axis formation was disordered. These results suggested the importance of F-actin during the first cell cycle and the existence of interactions between microfilaments and microtubules, implying the enigmatic mechanism of ooplasmic segregation. Solving this mystery leads us to an improved understanding of ascidian early development.
DOI： 10.3390/jdb10010010
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Different reactivity of Sp and Rp isomers of phosphorothioate-modified oligonucleotides in a duplex structure Reviewed
Md Ariful Islam, Aki Fujisaka, Junji Kawakami, Takao Yamaguchi, Satoshi Obika
Bioorganic Medicinal Chemistry Letters 30 ( 14 ) 127166 - 127166 2020.7
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Miho Takagi-Sato, Koji Morita, Yoshiyuki Onishi, Yuuka Watahiki, Taku Ishigaki, Tomoka Akita, Erisa Tomita, Junji Kawakami, Makoto Koizumi
Nucleosides, Nucleotides & Nucleic Acids 39 ( 6 ) 838 - 852 2020.6
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Efficacy of Fermented Extract Obtained from Multiple-Processed Fermentation Technology of Thermophilic Bacteria and Yeast Reviewed
Daichi Kawano, Zhengzheng Liao, Jing Nie, Akira Date, Eduardo Perez, Jose Fernandez, Corey Webb, Kristen Huber, Jeffry B. Stock, Junji Kawakami, Zihua Fu
JOURNAL OF JAPANESE COSMETIC SCIENCE SOCIETY 44 ( 3 ) 194 - 202 2020
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Enhancement of exon skipping activity by reduction in the secondary structure content of LNA-based splice-switching oligonucleotides Reviewed
T. Shimo, K. Tachibana, Y. Kawawaki, Y. Watahiki, T. Ishigaki, Y. Nakatsuji, T. Hara, J. Kawakami and S. Obika
Chem. Commun. 55 6850 - 6853 2019.4
Joint Work
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Influence of intracellular environment on allosteric ribozyme activity
Misaki Kameno, Mika Sawada, Nae Sakimoto and Junji Kawakami
178 - 179 2017.11
Joint Work
Authorship：Last author, Corresponding author
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Quantification of stabilization effect of co-solutes on RNA tertiary interaction
Natsumi Sasaki, Daisuke Miyoshi and Junji Kawakami
174 - 175 2017.11
Joint Work
Authorship：Last author, Corresponding author
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Quantitative relationship between chemical properties and bioactivities of anti-microRNA oligonucleotides targeted to tumor-associated microRNA-21 Reviewed
Koji Nagahama, Kenta Iseda, Daichi Kawano, Junji Kawakami
BIOCHIMIE 137 124 - 131 2017.6
Joint Work
Authorship：Last author, Corresponding author Publisher：ELSEVIER FRANCE-EDITIONS SCIENTIFIQUES MEDICALES ELSEVIER
Synthetic anti-microRNA oligonucleotides (AMOs) are promising drug candidates to inactivate disease related microRNAs because of their sequence-specific binding to their targets and the variety of chemical modifications available. Over the last decade, the qualitative relationships between the chemical properties of AMOs and bioactivity (inactivation of their target miRNAs) have been studied to enhance their bioactivity. On the other hand, in real-world drug development, drugs must be designed case-by case, taking many factors into account. Thus, in order to design AMOs that target specific miRNA, understanding the quantitative relationship between the chemical properties of AMOs and inactivation of their target miRNA is necessary. Here, we aimed to find the specific quantitative relationship of AMOs targeted to tumor-associated miR-21 through direct comparison of their inactivation efficacies with systematically varied chemical properties, including sequence-specific binding affinity, nuclease resistance, and RNase H activation. As a result, we newly found the quantitative relationships; (1) sequence specific binding affinity of AMOs against miR-21 is the main determining factor for inactivation efficacy, (2) nuclease resistance of AMOs impacts their miR-21 inactivation efficacy acting cooperatively with the binding affinity, although nuclease resistance alone does not affect the miRNA inactivation efficacy, and (3) RNase H activation is unnecessary. This study also demonstrates the utility of the obtained relationship for the design of AMO-based drugs targeted to miR-21, through cell-based analyses. Thus, the obtained quantitative relationship would make it possible to predict the miR-21 inactivation efficacy of AMOs which are newly designed. (C) 2017 Elsevier B.V. and Societe Francaise de Biochimie et Biologie Moleculaire (SFBBM). All rights reserved.
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Influence of intracellular environment on allosteric ribozyme activity
M. Kameno, M. Sawada, N. Sakimoto, J. Kawakami
Proc. 44th Intl. Symp. Nucleic Acid Chemistry 178 - 179 2017
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Quantification of stabilization effect of co-solutes on RNA tertiary interaction
N. Sasaki, D. Miyoshi, J. Kawakami
Proc. 44th Intl. Symp. Nucleic Acid Chemistry 174 - 175 2017
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Discovery of a new function of curcumin which enhances its anticancer therapeutic potency Reviewed
Koji Nagahama, Tomoya Utsumi, Takayuki Kumano, Saeko Maekawa, Naho Oyama, Junji Kawakami
Scientific Reports 6 30962 2016.8
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Characterization of functional RNA to perform self-cleavage reaction under low pH condition
N. Sakimoto, M. Kameno, N. Sasaki, J. Kawakami
Proc. 43rd Intl. Symp. Nucleic Acid Chemistry 284 - 285 2016
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Discovery of a new function of curcumin which enhances its anticancer therapeutic potency Reviewed
K. Nagahama, T. Utsumi, T. Kumano, S. Maekawa, N. Oyama, J. Kawakami
Scientific Reports 6 30962 2016
Joint Work
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Self-Assembling Polymer Micelle/Clay Nanodisk/Doxorubicin Hybrid Injectable Gels for Safe and Efficient Focal Treatment of Cancer Reviewed
Koji Nagahama, Daichi Kawano, Naho Oyama, Ayaka Takemoto, Takayuki Kumano, Junji Kawakami
BIOMACROMOLECULES 16 ( 3 ) 880 - 889 2015.3
Joint Work
Authorship：Last author Publisher：AMER CHEMICAL SOC
The purpose of this study was to fabricate a safe and effective doxorubicin (DOX)-delivery system for focal cancer chemotherapy. A novel biodegradable injectable gel was developed through self-assembly of poly(D,L-lactide-co-glycolide)-b-poly(ethylene glycol)-b-poly(D,L-lactide-co-glycolide) (PLGA-PEG-PLGA) copolymer micelles, clay nanodisks (CNDs), and DOX. We discovered that DOX loaded in the hybrid gels acts as an anticancer drug and as a building block to organize new gel networks. Accordingly, long-term sustained release of DOX from hybrid injectable gels without initial burst release was achieved. Moreover, it was revealed that the DOX incorporated into gel networks controls its own release profile. This hybrid injectable gel is a self-controlled drug release system, which is a novel concept in controlled drug release. Importantly, a single injection of PLGA-PEG-PLGA/CND/DOX hybrid gel provides long-term sustained antitumor activity in vivo against human xenograft tumors in mice, suggesting the potential of hybrid gels as a valuable local DOX-delivery platform for cancer focal therapy.
DOI： 10.1021/bm5017805
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Comparison of Kinetic and Thermodynamic Analyses for Duplex Formation
E. Tomita, M. Sumimoto, S. Itoh, M. Takashima, and J. Kawakami
142 - 143 2015
Joint Work
Authorship：Last author, Corresponding author
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Curcumisome nanovesicles generated by self-assembly of curcumin amphiphiles toward cancer theranostics Reviewed
Koji Nagahama, Takayuki Kumano, Naho Oyama, Junji Kawakami
BIOMATERIALS SCIENCE 3 ( 12 ) 1566 - 1578 2015
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A novel ribozyme core to perform self-cleavage reaction
S. Tanaka, N. Sakimoto, M. Kameno, N. Sasaki, and J. Kawakami
Proc. 41st Intl. Symp. Nucleic Acid Chemistry 340 - 341 2014.11
Joint Work
Authorship：Lead author
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Thermodynamic Features Provided by an ENA Introduction to Nucleic Acid Drugs
E. Tomita, M. Sumimoto, and J. Kawakami
Proc. 41st Intl. Symp. Nucleic Acid Chemistry 188 - 189 2014.11
Joint Work
Authorship：Last author, Corresponding author
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Effects of oligonucleotide length and locked nucleic acid content on splice-switching oligonucleotide activity
T. Shimo, K. Tachibana, K. Saito, T. Yoshida, E. Tomita, R. Waki, T. Yamamoto, T. Doi, T. Inoue, J. Kawakami, and S. Obika
Proc. 41st Intl. Symp. Nucleic Acid Chemistry 332 - 333 2014.11
Joint Work
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Design and evaluation of locked nucleic acid-based splice-switching oligonucleotides in vitro Reviewed
T. Shimo, K. Tachibana, K. Saito, T. Yoshida, E. Tomita, R. Waki, T. Yamamoto, T. Doi, T. Inoue, J. Kawakami and S. Obika
Nucleic Acids Res. 42 8174 - 8187 2014.6
Joint Work
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Thermodynamic Features Provided by an ENA Introduction to Nucleic Acid Drugs
E. Tomita, M. Sumimoto, J. Kawakami
Proc. 41st Intl. Symp. Nucleic Acid Chemistry 188 - 189 2014
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Positional Effect of 2',4'-BNA/LNA Introduction into DNA/RNA Duplexes on Thermodynamic Parameters
S. Tahara, E. Tomita, H. Nagai, S. Obika, and J. Kawakami
Proc. 40th Intl. Symp. Nucleic Acid Chemistry 190 - 191 2013.11
Joint Work
Authorship：Lead author
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Specific recognition of cytosine by hypoxanthine in pyrrolidinyl peptide nucleic acid Reviewed International coauthorship
C. Vilaivan, W. Srinarang, N. Yotapan, W. Mansawat, C. Boonlua, J. Kawakami, Y. Yamaguchi, Y. Tanaka, and T. Vilaivan
Org. Biomol. Chem. 11 2310 - 2317 2013
Joint Work
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Construction of a trans-acting system of a L-histidine dependent ribozyme based on the secondary structure
S. Tanaka, Y. Yamaguchi, R. Takamine, and J. Kawakami
Proc. 39th Intl. Symp. Nucleic Acid Chemistry 234 - 235 2012.11
Joint Work
Authorship：Lead author
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Structure-function relationship of a histidine dependent ribozyme
Y. Yamaguchi, Y. Ishibashi, S. Tanaka, A. Tanigawa, I. Matsunaga, and J. Kawakami
Proc. 38th Intl. Symp. Nucleic Acids Chemistry 194 - 195 2011.11
Joint Work
Authorship：Lead author
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Triplet analysis that identifies unpaired regions of functional RNAs（共著） Reviewed
J. Kawakami, Y. Yamaguchi, and N. Sugimoto
Journal of Nucleic Acids 2011 doi:10.4061/2011/471843 2011.10
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Pyrrolidinyl peptide nucleic acid with α/β-peptide backbone - A conformationally constrained PNA with unusual hybridization properties Reviewed International coauthorship
C. Vilaivan, C. Srisuwannaket, C. Ananthanawat, C. Suparpprom, J. Kawakami, Y. Yamaguchi, Y. Tanaka, T. Vilaivan
Artificial DNA: PNA & XNA 2 11 2011
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Comparative thermodynamic analysis of RNA-protein interaction on surface and in solution（共著）
Y. Tanaka, K. Ishidate, K. Kishimoto, N. Sugimoto, and J. Kawakami
Proc. 37th Intl. Symp. Nucleic Acids Chemistry 276 - 277 2010.11
Joint Work
Authorship：Lead author
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Accurate curve fitting procedure for UV melting analysis of highly thermostable RNA hairpins（共著）
J. Kawakami, Y. Tanaka, and K. Kishimoto
Nucleic Acids Symp. Ser. 53 227 - 228 2009.9
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Recognition of a flipped base in a hairpinloop DNA by a small peptide （共著） Reviewed
J. Kawakami, S. Okabe, Y. Tanabe, and N. Sugimoto
Nucleoside, Nucleotides and Nucleic Acids 27 292 - 308 2008.2
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Functional role of the cofactor on activation process of L-histidine dependent ribozyme（共著）
J. Kawakami, C. Maiya, and N. Sugimoto
Nucleic Acids Symp. Ser. 50 241 - 242 2006.11
Joint Work
Authorship：Lead author
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A novel stable RNA pentaloop that interacts specifically with a motif peptide of lambda-N protein（共著） Reviewed
J. Kawakami, H. Tokitoh, Y. Tanabe, and N. Sugimoto
Nucleoside, Nucleotides and Nucleic Acids 25 397 - 416 2006.4
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Specific recognition of the basic N peptide by an RNA（共著）
J. Kawakami, H. Tokitoh, Y. Tanabe, and N. Sugimoto
Nucleic Acids Symposium Series 49 353 - 354 2005.9
Joint Work
Authorship：Lead author
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Thermodynamic analysis of duplex formation of the heterochiral DNA with L-deoxyadenosine（共著） Reviewed
J. Kawakami, K. Tsujita, and N. Sugimoto
Analytical Sciences 21 ( 2 ) 77 - 82 2005.2
Joint Work
Authorship：Lead author
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Introduction of peptide function into DNA by Nucleic Acid Peptides, NAPs（共著） Reviewed
J. Kawakami, Z.-M. Wang, H. Fujiki, S. Izumi, and N. Sugimoto
Chemistry Letters 33 ( 12 ) 1554 - 1555 2004.12
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Stabilization of a DNA duplex under molecular crowding conditions of PEG （共著）
H. Karimata, S. Nakano, T. Ohmichi, J. Kawakami, and N. Sugimoto
Nucleic Acids Symp. Ser. 48 107 - 108 2004.11
Joint Work
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Analysis of the secondary structure of a ribozyme that requires His as a cofactor（共著）
J. Kawakami, C. Maiya, and N. Sugimoto
Nucleic Acids Symp. Ser. 48 203 - 204 2004.11
Joint Work
Authorship：Lead author
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The effect of molecular crowding with nucleotide length and cosolute structure on DNA duplex stability（共著） Reviewed
S. Nakano, H. Karimata, T. Ohmichi, J. Kawakami, and N. Sugimoto
Journal of American Chemical Society 126 14330 - 14331 2004.10
Joint Work
DOI： 10.1021/ja0463029
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Novel biomaterials derived from deoxyribozyme and NAPzyme Reviewed
Y. Okumoto, H. Fujiki, J. Kawakami, S. Nakashima, S. Nakano, T. Ohmichi, D. Miyoshi and N. Sugimoto
Macromol. Chem. Phys., Macromol. Symp. 201 245 - 252 2003
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A Stable DNA Tetraloop and Its Structural Tolerance for Modification Reviewed
KAWAKAMI Junji, YONEYAMA Mari, MIYOSHI Daisuke, SUGIMOTO Naoki
Chemistry Letters 2001 ( 3 ) 258 - 259 2001.3
Publisher：The Chemical Society of Japan
Structural features of a stable hairpin DNA with a tetraloop, dAGGC(TTCG)GCCT (CORE), and its six abasic mutants were investigated by the melting behavior of the UV absorption and circular dichroism spectra. The CORE and an abasic mutant at the second position of the loop exhibit considerable thermodynamic stability and have similar structural features suggesting the same folding with an identical base orientation of the two hairpin DNAs except for the second base in the loop.
DOI： 10.1246/cl.2001.258
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Utilization of ribozymes for loss-of-function analyses of the early development of the ascidian Ciona intestinalis
M. Katano, A. Yamada, K. J. Tanaka, A. Murakami, K. Taira, J. Kawakami, N. Sugimoto and T. Nishikata
Mem. Konan Univ., Sci. Eng. Ser. 48 11 - 20 2001
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Thermodynamic stability of base pairs between 2-hydroxyadenine and incoming nucleotides as a determinant of nucleotide incorporation specificity during replication Reviewed
J. Kawakami, H. Kamiya, K. Yasuda, H. Fujiki, H. Kasai and N. Sugimoto
Nucleic Acids Research 29 3289 - 3296 2001
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In vitro selection of aptamers that act with Zn2+ Reviewed
J. Kawakami, H. Imanaka, Y. Yokota and N. Sugimoto
J. Inorg. Biochem. 82 197 - 206 2000
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A selection of short peptides that interact with a porphyrin as a small target by immobilized phage display Reviewed
J. Kawakami, T. Kitano and N. Sugimoto
Chem. Commun. 1765 - 1766 1999
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Development of New Biotechnology for the 21st Century (II) -Structural and thermodynamic studies of PNA/DNA hybrids containing single bulge nucleotides-
Kyoko Yasuda, Junji Kawakami, Naoki Sugimoto
Mem, Konan Univ., Sci. Ser. 46 61 - 69 1999
Single Work
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Stability of DNA duplexes containing mirror-image DNA
J. Kawakami, K. Tsujita and N. Sugimoto
Nucleic Acids Symp. Ser. 39 55 - 56 1998
Authorship：Lead author
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生命関連分子の微視的相互作用(4)-ミスマッチを含むRNA/DNAハイブリッドの安定性に及ぼすミスマッチの隣接塩基対の影響-
藤本麻理子、川上純司、杉本直己
甲南大学紀要,理学編 45 135 1998
Single Work
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Minimization of genomic human hepatitis delta virus ribozyme Reviewed
H. Fauzi, A. Chiba, F. Nishikawa, M. Roy, J. Kawakami and S. Nishikawa
Anal. Chim. Acta 365 309 - 317 1998
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In vitro selection of aptamers that recognize a monosaccharide Reviewed
J. Kawakami, Y. Kawase and N. Sugimoto
Anal. Chim. Acta 365 95 - 100 1998
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生命関連分子の微視的相互作用(3)-RNA鎖を切断するデオキシリボザイムと金属イオンの関係-
奥本泰秀、川上純司、杉本直己
甲南大学紀要,理学編 45 125 1998
Single Work
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Evolution of a phosphorothioate RNA library during in vitro selection
J. Kawakami and N. Sugimoto
Nucleic Acids Symp. Ser. 37 201 - 202 1997
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Analysis of the cleavage reaction of a trans-acting human hepatitis delta virus ribozyme Reviewed
H. Fauzi, J. Kawakami, F. Nishikawa and S. Nishikawa
Nucleic Acids Research 25 3124 - 3130 1997
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生命関連分子の微視的相互作用(II)-ペプチドの分子内α-ヘリックスと分子間β-シートの構造遷移-
三好大輔、鄒晉、川上純司、杉本直己
甲南大学紀要,理学編 44 17 1997
Single Work
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Selection in vitro of trans-acting genomic human hepatitis delta virus (HDV) ribozymes Reviewed
F. Nishikawa, J. Kawakami, A. Chiba, K. Yuda, M. Shirai, P.K.R. Kumar and S. Nishikawa
Eur. J. Biochem. 327 712 - 718 1996
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Constructing an efficient trans-acting genomic HDV ribozyme Reviewed
J. Kawakami, K. Yuda, Y.-A. Suh, P.K.R. Kumar, F. Nishikawa, H. Maeda, K. Taira, E. Ohtsuka and S. Nishikawa
FEBS Lett. 394 132 - 136 1996
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生命関連分子の微視的相互作用(I)-バルジを含むDNA二重らせんの熱力学的安定性に及ぼすイノシン置換の影響-
楢木泰俊、川上純司、杉本直己
甲南大学紀要,理学編 43 37 - 47 1996
Single Work
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ANALYSIS OF FUNCTIONAL STRUCTURE OF HDV RIBOZYME BY MODIFICATION INTERFERENCE AND IN-VITRO SELECTION-STRATEGIES Reviewed
S NISHIKAWA, YH JEOUNG, P KUMAR, J KAWAKAMI, F NISHIKAWA, A CHIBA, K YUDA, P VILLJANEN, K TAIRA
JOURNAL OF CELLULAR BIOCHEMISTRY 19A 227 - 227 1995.1
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Designing of HDV ribozyme by in vitro selection Reviewed
S. Nishikawa, F. Nishikawa, J. Kawakami, A. Chiba, K. Yuda, Y.-H. Jeoung, P.K.R. Kumar and K. Taira
Antisense Research and Development 54 104 - 105 1995
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ヒトδ型肝炎ウイルス（HDV）リボザイムの構造活性相関に関する研究
川上純司
1994.3
Single Work
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Monoclonal antibodies with affinity to self-complementary left-handed DNA containing cyclonucleosides with high anti conformation Reviewed
J. Kawakami, S. Uesugi, M. Ikehara, T. Itoh, K. Miura and E. Ohtsuka
Nucleosides & Nucleotides 13 421 - 427 1994
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Systematic substitution of individual bases in two important single-stranded regions of the HDV ribozyme for evaluation of the role of specific bases Reviewed
Y.-A. Suh, P.K.R. Kumar, J. Kawakami, F. Nishikawa, K. Taira, and S. Nishikawa
FEBS Lett. 326 158 - 162 1993
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Chemical probing studies of the hepatitis delta virus (HDV) genomic ribozyme
S. Nishikawa, P.K.R. Kumar, Y.-H. Jeong, J. Kawakami, F. Nishikawa, Y.-A. Suh, E. Ohtsuka and K. Taira
Nucleic Acids Symp. Ser. 29 119 - 120 1993
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Identification of important bases in a single-stranded region (SSrC) of the hepatitis delta ribozyme Reviewed
J. Kawakami, P.K.R. Kumar, Y.-A. Suh, F. Nishikawa, K. Kawakami, K. Taira, E. Ohtsuka and S. Nishikawa
Eur. J. Biochem. 217 29 - 36 1993
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Random mutations to evaluate the role of bases at two important single-stranded regions of genomic HDV ribozyme Reviewed
P.K.R. Kumar, Y.-A. Suh, H. Miyashiro, F. Nishikawa, J. Kawakami, K. Taira and S. Nishikawa
Nucleic Acids Research 20 3919 - 3924 1992
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Ribozymes as molecular scissors for suppressing AIDS virus Reviewed
J. Ohkawa, T. Shimayama, N. Yuyama, S. Sawata, Y. Takagi, A. Wada, K. Yasuda, J. Kawakami, P.K.R. Kumar, Y.-A. Suh, F. Nishikawa, M. Oda, S. Shinshi, M. Uebayashi, T. Uchimaru, K. Furukawa, S. Nishikawa and K. Taira
Now & Future 8 8 - 12 1992
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Identification of important bases for the self-cleavage activity at two single-stranded regions of genomic HDV ribozyme
S. Nishikawa, Y.-A. Suh, P.K.R. Kumar, J. Kawakami, F. Nishikawa and K. Taira
Nucleic Acids Symposium Series 27 41 1992
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