Search Results - "KAWAI, GOTA"

Small molecule targeting r(UGGAA)n disrupts RNA foci and alleviates disease phenotype in Drosophila model by Shibata, Tomonori, Nagano, Konami, Ueyama, Morio, Ninomiya, Kensuke, Hirose, Tetsuro, Nagai, Yoshitaka, Ishikawa, Kinya, Kawai, Gota, Nakatani, Kazuhiko

“…Synthetic small molecules modulating RNA structure and function have therapeutic potential for RNA diseases. Here we report our discovery that naphthyridine…”
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Influence of the 5′-terminal sequences on the 5′-UTR structure of HIV-1 genomic RNA by Obayashi, Camille Michiko, Shinohara, Yoko, Masuda, Takao, Kawai, Gota

“…The 5′-UTR of HIV-1 genomic RNA is known to form specific structures and has important functions. There are three 5′-terminal sequences, G1, G2 and G3, with…”
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Interaction between a fluoroquinolone derivative and RNAs with a single bulge by Nagano, Konami, Kamimura, Takashi, Kawai, Gota

“…Abstract Interaction analysis between small molecules and RNA as well as structure determination of RNA–small molecule complexes will be the clues to search…”
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Homo-trimeric structure of the ribonuclease for rRNA processing, FAU-1, from Pyrococcus furiosus by Kawai, Gota, Okada, Kiyoshi, Baba, Seiki, Sato, Asako, Sakamoto, Taiichi, Kanai, Akio

“…Crystal structure of a ribonuclease for rRNA processing, FAU-1, from Pyrococcus furiosus was determined with the resolution of 2.57 Å in a homo-trimeric form…”
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Solution structure of a reverse transcriptase recognition site of a LINE RNA from zebrafish by Otsu, Maina, Kajikawa, Masaki, Okada, Norihiro, Kawai, Gota

“…Long interspersed nuclear element (LINE) is known to be transposed by reverse transcription using its RNA transcript. Recognition of the 3' stem-loop of LINE…”
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Developing an Updated Strategy for Estimating the Free-Energy Parameters in RNA Duplexes by Dawson, Wayne K., Shino, Amiu, Kawai, Gota, Morishita, Ella Czarina

“…For the last 20 years, it has been common lore that the free energy of RNA duplexes formed from canonical Watson–Crick base pairs (bps) can be largely…”
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Crystal structure of adenylate kinase from an extremophilic archaeon Aeropyrum pernix with ATP and AMP by Shibanuma, Yoshinori, Nemoto, Naoki, Yamamoto, Norifumi, Sampei, Gen-Ichi, Kawai, Gota

“…The crystal structure of an adenylate kinase from an extremophilic archaeon Aeropyrum pernix was determined in complex with full ligands, ATP-Mg2+ and AMP, at…”
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Free-Energy Profile Analysis of the Catalytic Reaction of Glycinamide Ribonucleotide Synthetase by Yamamoto, Norifumi, Sampei, Genichi, Kawai, Gota

“…The second step in the de novo biosynthetic pathway of purine is catalyzed by PurD, which consumes an ATP molecule to produce glycinamide ribonucleotide (GAR)…”
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RNomics of Thermus themophilus HB8 by DNA microarray and next-generation sequencing by Kawai, Gota, Aoki, Yuri, Otsu, Maina, Koike, Naomi, Sampei, Gen-Ichi

“…By using the data obtained by the DNA microarray analysis for the intergenic regions applied to RNA samples extracted from Thermus thermophilus HB8, seven…”
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Fate of HIV-1 cDNA intermediates during reverse transcription is dictated by transcription initiation site of virus genomic RNA by Masuda, Takao, Sato, Yoko, Huang, Yu-Lun, Koi, Satoshi, Takahata, Tatsuro, Hasegawa, Atsuhiko, Kawai, Gota, Kannagi, Mari

“…Retroviral reverse transcription is accomplished by sequential strand-transfers of partial cDNA intermediates copied from viral genomic RNA. Here, we revealed…”
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Identification of a short form of a Caenorhabditis elegans Y RNA homolog Cel7 RNA by Chiba, Takehiro, Kihara, Shin-ya, Sato, Manami, Xingkui, Kou, Goto, Simon, Suzumura, Takuma, Kawai, Gota, Himeno, Hyouta, Ushida, Chisato

“…Cel7 RNA is a member of the Caenorhabditis elegans stem-bulge RNAs (sbRNAs) that are classified into the Y RNA family based on their structural similarity. We…”
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Cis -Allosteric Regulation of HIV-1 Reverse Transcriptase by Integrase by Masuda, Takao, Kotani, Osamu, Yokoyama, Masaru, Abe, Yuya, Kawai, Gota, Sato, Hironori

“…Reverse transcriptase (RT) and integrase (IN) are encoded tandemly in the genes of retroviruses. We reported recently that HIV-1 RT and IN need to be supplied…”
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Non-coding RNAs and functional RNA elements in Thermus thermophilus by Kawai, Gota, Sampei, Gen-ichi, Nishiyama, Makoto, Bessho, Yoshitaka

“…To complete the ThermusQ database, small non-coding RNAs (ncRNAs) and functional RNA elements found in Thermus thermophilus were summarized with annotations…”
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Convergent evolution of nitrogen-adding enzymes in the purine nucleotide biosynthetic pathway, based on structural analysis of adenylosuccinate synthetase (PurA) by Sampei, Gen-ichi, Ishii, Hironori, Taka, Hiroyuki, Kawai, Gota

“…Adenylosuccinate synthetase (PurA) is an enzyme responsible for the nitrogen addition to inosine monophosphate (IMP) by aspartate in the purine nucleotide…”
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Interaction between a fluoroquinolone derivative KG022 and RNAs: Effect of base pairs 3' adjacent to the bulged residues by Ichijo, Rika, Kamimura, Takashi, Kawai, Gota

“…RNA-targeted small molecules are a promising modality in drug discovery. Recently, we found that a fluoroquinolone derivative, KG022, can bind to RNAs with…”
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Cytotoxic Mechanism of Excess Polyamines Functions through Translational Repression of Specific Proteins Encoded by Polyamine Modulon by Sakamoto, Akihiko, Sahara, Junpei, Kawai, Gota, Yamamoto, Kaneyoshi, Ishihama, Akira, Uemura, Takeshi, Igarashi, Kazuei, Kashiwagi, Keiko, Terui, Yusuke

“…Excessive accumulation of polyamines causes cytotoxicity, including inhibition of cell growth and a decrease in viability. We investigated the mechanism of…”
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NMR monitoring of the SELEX process to confirm enrichment of structured RNA by Amano, Ryo, Aoki, Kazuteru, Miyakawa, Shin, Nakamura, Yoshikazu, Kozu, Tomoko, Kawai, Gota, Sakamoto, Taiichi

“…RNA aptamers are RNA molecules that bind to a target molecule with high affinity and specificity using uniquely-folded tertiary structures. RNA aptamers are…”
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Sequence and structure analysis of a mirror tRNA located upstream of the cytochrome oxidase I mRNA in mouse mitochondria by Okui, Saya, Ushida, Chisato, Kiyosawa, Hidenori, Kawai, Gota

“…RNA fragments corresponding to the mirror tRNA that is located upstream of the cytochrome oxidase I (COXI) gene in the mouse mitochondrial genome were found in…”
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Synthesis of a protected ribonucleoside phosphoramidite-linked spin label via an alkynyl chain at the 5′ position of uridine by Hatano, Akihiko, Terado, Nanae, Kanno, Yuichi, Nakamura, Toshikazu, Kawai, Gota

“…New, spin-labeled nucleosides, and an efficient synthetic route for a modified uridine amidite, were developed. The spin-labeled part was the…”
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Immobilization of DNA on Quartz Crystal Microbalance Sensor Modified with Self-Assembled Monolayer of Thiol Derivative by Shibata, Hirobumi, Nemoto, Junpei, Shiba, Shota, Yamane, Yusuke, Kawai, Gota, Hashimoto, Kazuaki

“…In this study, we investigated the direct detection of DNA, without pretreatment, using a quartz crystal microbalance (QCM) sensor. This sensor is modified by…”
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