論文 - 村上 裕
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Large-scale analysis of mRNA sequences localized near the start and amber codons and their impact on the diversity of mRNA display libraries 査読有り
Umemoto, S.; Kondo, T.; Fujino, T.; Hayashi, G.; Murakami, H.*
Nucleic Acids Research 頁： gkad555 2023年7月
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Monobodies with potent neutralizing activity against SARS-CoV-2 Delta and other variants of concern 査読有り
Kondo, T.; Matsuoka, K.; Umemoto, S.;Fujino, T.; Hayashi, G.; Iwatani, Y.*; Murakami, H.*
Life Science Alliance 5 巻 ( 6 ) 頁： e202101322 2022年3月
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Antibody-like proteins that capture and neutralize SARS-CoV-2. 査読有り
Kondo, T.; Iwatani, Y.; Matsuoka, K.; Fujino, T.; Umemoto, S.; Yokomaku, Y.; Ishizaki, K.; Kito, S.; Sezaki, T.; Hayashi, G.; Murakami, H.*
6 巻 ( 42 ) 頁： eabd3916 2020年10月
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Generating a mirror-image monobody targeting MCP-1 via TRAP display and chemical protein synthesis. Open Access
Hayashi G, Naito T, Miura S, Iwamoto N, Usui Y, Bando-Shimizu M, Suzuki S, Higashi K, Nonaka M, Oishi S, Murakami H
Nature communications 15 巻 ( 1 ) 頁： 10723 2024年12月
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The effect of Fc region affinity of protein-based antibody-recruiting molecules on antibody-dependent cellular cytotoxicity. Open Access
Tagawa H, Saeki R, Yamamoto C, Tanito K, Tanaka C, Munekawa S, Nii T, Kishimura A, Murakami H, Mori T, Katayama Y
RSC advances 14 巻 ( 32 ) 頁： 22860 - 22866 2024年7月
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Ser/Leu-swapped cell-free translation system constructed with natural/in vitro transcribed-hybrid tRNA set. Open Access
Fujino T, Sonoda R, Higashinagata T, Mishiro-Sato E, Kano K, Murakami H
Nature communications 15 巻 ( 1 ) 頁： 4143 2024年5月
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Optineurin provides a mitophagy contact site for TBK1 activation. Open Access
Yamano K, Sawada M, Kikuchi R, Nagataki K, Kojima W, Endo R, Kinefuchi H, Sugihara A, Fujino T, Watanabe A, Tanaka K, Hayashi G, Murakami H, Matsuda N
The EMBO journal 43 巻 ( 5 ) 頁： 754 - 779 2024年3月
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Optineurin provides a mitophagy contact site for TBK1 activation 査読有り
Koji Yamano, Momoha Sawada, Reika Kikuchi, Kafu Nagataki, Waka Kojima, Ryu Endo, Hiroki Kinefuchi, Atsushi Sugihara, Tomoshige Fujino, Aiko Watanabe, Keiji Tanaka, Gosuke Hayashi, Hiroshi Murakami, and Noriyuki Matsuda
EMBO J ( 43 ) 頁： 754 2024年1月
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Large-scale analysis of mRNA sequences localized near the start and amber codons and their impact on the diversity of mRNA display libraries. Open Access
Umemoto S, Kondo T, Fujino T, Hayashi G, Murakami H
Nucleic acids research 51 巻 ( 14 ) 頁： 7465 - 7479 2023年8月
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Thiocholine-Mediated One-Pot Peptide Ligation and Desulfurization. 査読有り
Suzuki, S.; Nakajima, Y.; Kamo, N.; Osakabe, A.; Okamoto, A.; Hayashi, G.*; Murakami, H.*
molecules ( 28 ) 頁： 3655 2023年4月
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Thiocholine-Mediated One-Pot Peptide Ligation and Desulfurization. Open Access
Suzuki S, Nakajima Y, Kamo N, Osakabe A, Okamoto A, Hayashi G, Murakami H
Molecules (Basel, Switzerland) 28 巻 ( 9 ) 頁： 3655 - 3655 2023年4月
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Koki Nakatsu, Prof. Dr. Akimitsu Okamoto, Prof. Dr. Gosuke Hayashi, Prof. Dr. Hiroshi Murakami
Angewandte Chemie International Edition 61 巻 ( 39 ) 頁： e202206240 2022年7月
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Construction of a Highly Diverse mRNA Library for in vitro Selection of Monobodies.
Kondo T, Eguchi M, Tsuzuki N, Murata N, Fujino T, Hayashi G, Murakami H
Bio-protocol 11 巻 ( 16 ) 頁： e4125 2021年8月
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Organoruthenium-Catalyzed Chemical Protein Synthesis to Elucidate the Functions of Epigenetic Modifications on Heterochromatin Factors. 招待有り 査読有り
Kamo, N.; Kujirai, T.; Kurumizaka, H.; Murakami, H.; Hayashi, G.* Okamoto, A.*
Chemical Science 12 巻 頁： 5926 - 5937 2021年3月
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cDNA TRAP display for rapid and stable in vitro selection of antibody-like proteins. 国際誌
Kondo T, Eguchi M, Kito S, Fujino T, Hayashi G, Murakami H
Chemical communications (Cambridge, England) 57 巻 ( 19 ) 頁： 2416 - 2419 2021年3月
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An Amino Acid-Swapped Genetic Code. 国際誌
Fujino T, Tozaki M, Murakami H
ACS synthetic biology 9 巻 ( 10 ) 頁： 2703 - 2713 2020年10月
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Antibody-like proteins that capture and neutralize SARS-CoV-2.
Kondo T, Iwatani Y, Matsuoka K, Fujino T, Umemoto S, Yokomaku Y, Ishizaki K, Kito S, Sezaki T, Hayashi G, Murakami H
Science advances 6 巻 ( 42 ) 2020年10月
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An amino acid-swapped genetic code. 査読有り
Fujino, T.; Tozaki, M.; Murakami, H.*
ACS Synthetic Biology 9 巻 ( 10 ) 頁： 2703 - 2713 2020年9月
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Exploring the Minimal RNA Substrate of Flexizymes. 査読有り 国際誌
Fujino T, Kondo T, Suga H, Murakami H
Chembiochem : a European journal of chemical biology 20 巻 ( 15 ) 頁： 1959 - 1965 2019年8月
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Multiple Site-Directed and Saturation Mutagenesis by the Patch Cloning Method. 国際誌
Taniguchi N, Murakami H
Methods in molecular biology (Clifton, N.J.) 1498 巻 頁： 339 - 347 2017年
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Transient Tcf3 Gene Repression by TALE-Transcription Factor Targeting.
Masuda J, Kawamoto H, Strober W, Takayama E, Mizutani A, Murakami H, Ikawa T, Kitani A, Maeno N, Shigehiro T, Satoh A, Seno A, Arun V, Kasai T, Fuss IJ, Katsura Y, Seno M
Applied biochemistry and biotechnology 180 巻 ( 8 ) 頁： 1559 - 1573 2016年12月
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Expanding the amino acid repertoire of ribosomal polypeptide synthesis via the artificial division of codon boxes.
Iwane Y, Hitomi A, Murakami H, Katoh T, Goto Y, Suga H
Nature chemistry 8 巻 ( 4 ) 頁： 317 - 325 2016年4月
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Ribosomal Synthesis of Peptides with Multiple β-Amino Acids.
Fujino T, Goto Y, Suga H, Murakami H
Journal of the American Chemical Society 138 巻 ( 6 ) 頁： 1962 - 1969 2016年2月
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In Vitro Selection Combined with Ribosomal Translation Containing Non-proteinogenic Amino Acids.
Fujino T, Murakami H
Chemical record (New York, N.Y.) 16 巻 ( 1 ) 頁： 365 - 377 2016年2月
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Incorporation of electrically charged N-alkyl amino acids into ribosomally synthesized peptides via post-translational conversion. 査読有り
Kawakami, T.*; Sasaki, T; Reid, P. C.; Murakami, H.
Chemical Science 5 巻 頁： 887-893 2014年11月
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ZFP36L1 and ZFP36L2 control LDLR mRNA stability via the ERK-RSK pathway.
Adachi S, Homoto M, Tanaka R, Hioki Y, Murakami H, Suga H, Matsumoto M, Nakayama KI, Hatta T, Iemura S, Natsume T
Nucleic acids research 42 巻 ( 15 ) 頁： 10037 - 10049 2014年9月
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Incorporation of electrically charged N-alkyl amino acids into ribosomally synthesized peptides via post-translational conversion
Takashi Kawakami, Toru Sasaki, Patrick C. Reid, Hiroshi Murakami
Chemical Science 5 巻 ( 3 ) 頁： 887 - 887 2014年
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Nonstandard peptide expression under the genetic code consisting of reprogrammed dual sense codons.
Goto Y, Iseki M, Hitomi A, Murakami H, Suga H
ACS chemical biology 8 巻 ( 12 ) 頁： 2630 - 2634 2013年12月
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Patch cloning method for multiple site-directed and saturation mutagenesis.
Taniguchi N, Nakayama S, Kawakami T, Murakami H
BMC biotechnology 13 巻 ( 1 ) 頁： 91 2013年12月
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Extensive reprogramming of the genetic code for genetically encoded synthesis of highly N-alkylated polycyclic peptidomimetics.
Kawakami T, Ishizawa T, Murakami H
Journal of the American Chemical Society 135 巻 ( 33 ) 頁： 12297 - 12304 2013年8月
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In vitro selection of multiple libraries created by genetic code reprogramming to discover macrocyclic peptides that antagonize VEGFR2 activity in living cells.
Kawakami T, Ishizawa T, Fujino T, Reid PC, Suga H, Murakami H
ACS chemical biology 8 巻 ( 6 ) 頁： 1205 - 1214 2013年6月
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TRAP display: a high-speed selection method for the generation of functional polypeptides.
Ishizawa T, Kawakami T, Reid PC, Murakami H
Journal of the American Chemical Society 135 巻 ( 14 ) 頁： 5433 - 5440 2013年4月
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Reevaluation of the D-amino acid compatibility with the elongation event in translation.
Fujino T, Goto Y, Suga H, Murakami H
Journal of the American Chemical Society 135 巻 ( 5 ) 頁： 1830 - 1837 2013年2月
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Patch cloning method for multiple site-directed and saturation mutagenesis 査読有り
Taniguchi, N; Nakayama, S; Kawakami, T.; Murakami, H.
BMC Biotechnology 頁： 13:91 2013年
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Extensive reprogramming of the genetic code for genetically encoded synthesis of highly N-alkylated polycyclic peptidomimetics. 査読有り
Kawakami, T.; Ishizawa, T.; Murakami, H
Journal of the American Chemical Society 135 巻 頁： 12297-304 2013年
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Artificially created nucleic acids and peptides/proteins in chemical biology.
Kuwahara M, Li Y, Rozners E, Murakami H
Journal of nucleic acids 2013 巻 頁： 219263 2013年
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Genetically encoded libraries of nonstandard peptides.
Kawakami T, Murakami H
Journal of nucleic acids 2012 巻 頁： 1 - 15 2012年
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Diverse backbone-cyclized peptides via codon reprogramming.
Kawakami T, Ohta A, Ohuchi M, Ashigai H, Murakami H, Suga H
Nature chemical biology 5 巻 ( 12 ) 頁： 888 - 890 2009年12月
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A flexizyme that selectively charges amino acids activated by a water-friendly leaving group.
Niwa N, Yamagishi Y, Murakami H, Suga H
Bioorganic & medicinal chemistry letters 19 巻 ( 14 ) 頁： 3892 - 3894 2009年7月
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Ribosomal synthesis of cyclic peptides with a fluorogenic oxidative coupling reaction.
Yamagishi Y, Ashigai H, Goto Y, Murakami H, Suga H
Chembiochem : a European journal of chemical biology 10 巻 ( 9 ) 頁： 1469 - 1472 2009年6月
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Ribosomal synthesis of peptides with C-terminal lactams, thiolactones, and alkylamides.
Nakajima E, Goto Y, Sako Y, Murakami H, Suga H
Chembiochem : a European journal of chemical biology 10 巻 ( 7 ) 頁： 1186 - 1192 2009年5月
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Bases in the anticodon loop of tRNA(Ala)(GGC) prevent misreading.
Murakami H, Ohta A, Suga H
Nature structural & molecular biology 16 巻 ( 4 ) 頁： 353 - 358 2009年4月
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Ribosomal synthesis of dehydrobutyrine- and methyllanthionine-containing peptides.
Goto Y, Iwasaki K, Torikai K, Murakami H, Suga H
Chemical communications (Cambridge, England) ( 23 ) 頁： 3419 - 3419 2009年
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Ribosomal synthesis of polypeptoids and peptoid-peptide hybrids.
Kawakami T, Murakami H, Suga H
Journal of the American Chemical Society 130 巻 ( 50 ) 頁： 16861 - 16863 2008年12月
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Polymerization of alpha-hydroxy acids by ribosomes.
Ohta A, Murakami H, Suga H
Chembiochem : a European journal of chemical biology 9 巻 ( 17 ) 頁： 2773 - 2778 2008年11月
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Structural basis of specific tRNA aminoacylation by a small in vitro selected ribozyme.
Xiao H, Murakami H, Suga H, Ferré-D'Amaré AR
Nature 454 巻 ( 7202 ) 頁： 358 - 361 2008年7月
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Initiating translation with D-amino acids.
Goto Y, Murakami H, Suga H
RNA (New York, N.Y.) 14 巻 ( 7 ) 頁： 1390 - 1398 2008年7月
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Ribosomal synthesis of bicyclic peptides via two orthogonal inter-side-chain reactions.
Sako Y, Morimoto J, Murakami H, Suga H
Journal of the American Chemical Society 130 巻 ( 23 ) 頁： 7232 - 7234 2008年6月
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Ribosomal synthesis of peptidase-resistant peptides closed by a nonreducible inter-side-chain bond.
Sako Y, Goto Y, Murakami H, Suga H
ACS chemical biology 3 巻 ( 4 ) 頁： 241 - 249 2008年4月
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Reprogramming the translation initiation for the synthesis of physiologically stable cyclic peptides. 査読有り
Goto Y, Ohta A, Sako Y, Yamagishi Y, Murakami H, Suga H
ACS chemical biology 3 巻 ( 2 ) 頁： 120 - 129 2008年2月
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Messenger RNA-programmed incorporation of multiple N-methyl-amino acids into linear and cyclic peptides. 査読有り
Kawakami T, Murakami H, Suga H
Chemistry & biology 15 巻 ( 1 ) 頁： 32 - 42 2008年1月
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Synthesis of polyester by means of genetic code reprogramming.
Ohta A, Murakami H, Higashimura E, Suga H
Chemistry & biology 14 巻 ( 12 ) 頁： 1315 - 1322 2007年12月
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The flexizyme system: a highly flexible tRNA aminoacylation tool for the translation apparatus.
Ohuchi M, Murakami H, Suga H
Current opinion in chemical biology 11 巻 ( 5 ) 頁： 537 - 542 2007年10月
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[Reprogramming the genetic code using flexizyme].
Sako Y, Murakami H, Suga H
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 52 巻 ( 13 Suppl ) 頁： 1643 - 8 2007年10月
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Ribosomal Polyester Synthesis Using Reprogrammed Genetic Code 査読有り
Atsushi Ohta, Hiroshi Murakami, Hiroaki Suga
Kobunshi 56 巻 ( 4 ) 頁： 196 - 199 2007年
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In situ generation of aminoacyl-tRNAs assisted by ribozymes in translation apparatus. 査読有り
Ohuchi M, Murakami H, Suga H
Nucleic acids symposium series (2004) ( 51 ) 頁： 115 - 116 2007年
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Exploration of incorporation of Nalpha-methylated amino acids into peptides by sense-suppression method. 査読有り
Kawakami T, Murakami H, Suga H
Nucleic acids symposium series (2004) ( 51 ) 頁： 361 - 362 2007年
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[Expansion and reprogramming of genetic code by Flexizyme].
Murakami H, Suga H
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 51 巻 ( 16 Suppl ) 頁： 2496 - 501 2006年12月
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フレキシザイムを用いた遺伝暗号の拡張とリプログラミング (RNAと生命) -- (RNAテクノロジーと創薬)
村上 裕, 菅 裕明
蛋白質核酸酵素 51 巻 ( 16 ) 頁： 2496-2501 2006年12月
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Leucyl/Phenylalanyl-tRNA-protein transferase-mediated chemoenzymatic coupling of N-terminal Arg/Lys units in post-translationally processed proteins with non-natural amino acids.
Taki M, Kuno A, Matoba S, Kobayashi Y, Futami J, Murakami H, Suga H, Taira K, Hasegawa T, Sisido M
Chembiochem : a European journal of chemical biology 7 巻 ( 11 ) 頁： 1676 - 1679 2006年11月
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テクノ・トレンド フレキシザイム--遺伝暗号の拡張とリプログラミングへの応用
村上 裕, 菅 裕明
バイオテクノロジージャーナル 6 巻 ( 6 ) 頁： 734-737 2006年11月
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A highly flexible tRNA acylation method for non-natural polypeptide synthesis.
Murakami H, Ohta A, Ashigai H, Suga H
Nature methods 3 巻 ( 5 ) 頁： 357 - 359 2006年5月
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セントラルドグマをつくりかえる (特集 生命をデザインする合成生物学)
村上 裕, 菅 裕明, 平尾 一郎
バイオニクス 3 巻 ( 3 ) 頁： 34-39 2006年3月
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Flexizyme as a versatile tRNA acylation catalyst and the application for translation. 査読有り 国際誌
Murakami H, Ohta A, Goto Y, Sako Y, Suga H
Nucleic acids symposium series (2004) ( 50 ) 頁： 35-36 - 6 2006年
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In vitro evolution of flexizymes that function under the conditions in translation system. 査読有り
Ohuchi M, Murakami H, Suga H
Nucleic acids symposium series (2004) ( 50 ) 頁： 299-300 2006年
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Translation initiation by using various N-acylaminoacyl tRNAs. 査読有り 国際誌
Goto Y, Ashigai H, Sako Y, Murakami H, Suga H
Nucleic acids symposium series (2004) ( 50 ) 頁： 293-294 - 4 2006年
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Programmable ribozymes for mischarging tRNA with nonnatural amino acids and their applications to translation.
Kourouklis D, Murakami H, Suga H
Methods (San Diego, Calif.) 36 巻 ( 3 ) 頁： 239 - 244 2005年7月
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Designer ribozymes: programming the tRNA specificity into flexizyme.
Ramaswamy K, Saito H, Murakami H, Shiba K, Suga H
Journal of the American Chemical Society 126 巻 ( 37 ) 頁： 11454 - 11455 2004年9月
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Position-specific incorporation of dansylated non-natural amino acids into streptavidin by using a four-base codon.
Hohsaka T, Muranaka N, Komiyama C, Matsui K, Takaura S, Abe R, Murakami H, Sisido M
FEBS letters 560 巻 ( 1-3 ) 頁： 173 - 177 2004年2月
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Using a solid-phase ribozyme aminoacylation system to reprogram the genetic code.
Murakami H, Kourouklis D, Suga H
Chemistry & biology 10 巻 ( 11 ) 頁： 1077 - 1084 2003年11月
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[Artificial ribozymes: selection and application for nonnatural amino acid mutagenesis]. 査読有り
Murakami H, Suga H
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 48 巻 ( 11 Suppl ) 頁： 1511-1518 2003年8月
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人工リボザイム--試験管内分子進化と非天然アミノ酸変異法への応用 (化学と生物学の接点がつくるNewバイオテクノロジー) -- (新規遺伝子と蛋白質を創製する)
村上 裕, 菅 裕明
蛋白質核酸酵素 48 巻 ( 11 ) 頁： 1511-1518 2003年8月
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A versatile tRNA aminoacylation catalyst based on RNA.
Murakami H, Saito H, Suga H
Chemistry & biology 10 巻 ( 7 ) 頁： 655 - 662 2003年7月
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Random insertion and deletion mutagenesis. 査読有り
Murakami H, Hohsaka T, Sisido M
Methods in molecular biology (Clifton, N.J.) 231 巻 頁： 53 - 64 2003年
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Position-specific incorporation of a fluorophore-quencher pair into a single streptavidin through orthogonal four-base codon/anticodon pairs.
Taki M, Hohsaka T, Murakami H, Taira K, Sisido M
Journal of the American Chemical Society 124 巻 ( 49 ) 頁： 14586 - 14590 2002年12月
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Aminoacyl-tRNA synthesis by a resin-immobilized ribozyme.
Murakami H, Bonzagni NJ, Suga H
Journal of the American Chemical Society 124 巻 ( 24 ) 頁： 6834 - 6835 2002年6月
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Random insertion and deletion of arbitrary number of bases for codon-based random mutation of DNAs.
Murakami H, Hohsaka T, Sisido M
Nature biotechnology 20 巻 ( 1 ) 頁： 76 - 81 2002年1月
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A novel fluorescent nonnatural amino acid that can be incorporated into a specific position of streptavidin. 査読有り
Taki M, Hohsaka T, Murakami H, Kuno A, Hasegawa T, Taira K, Sisido M
Nucleic acids research. Supplement (2001) ( 2 ) 頁： 203 - 204 2002年
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Incorporation of Nonnatural Amino Acids into Proteins by Using Various Four-Base Codons in an <i>Escherichia coli</i> in Vitro Translation System
Takahiro Hohsaka, Yuki Ashizuka, Hikaru Taira, Hiroshi Murakami, Masahiko Sisido
Biochemistry 40 巻 ( 37 ) 頁： 11060 - 11064 2001年9月
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A non-natural amino acid for efficient incorporation into proteins as a sensitive fluorescent probe
Taki, M. and Hohsaka, T. and Murakami, H. and Taira, K. and Sisido, M.
FEBS Letters 507 巻 ( 1 ) 頁： 35-38 2001年
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Five-base codons for incorporation of nonnatural amino acids into proteins
Hohsaka, T. and Ashizuka, Y. and Murakami, H. and Sisido, M.
Nucleic Acids Res. 29 巻 ( 17 ) 頁： 3646-3651 2001年
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Incorporation of nonnatural amino acids into proteins by using various four-base codons in an Escherichia coli in vitro translation system
Hohsaka, T. and Ashizuka, Y. and Taira, H. and Murakami, H. and Sisido, M.
Biochemistry 40 巻 ( 37 ) 頁： 11060-11064 2001年
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Five-base codons for incorporation of nonnatural amino acids into proteins
Hohsaka, T, Ashizuka, Y, Murakami, H, Sisido, M
Nucleic Acids Res. 29 巻 ( 17 ) 頁： 3646-3651 2001年
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Site-Directed Incorporation of Fluorescent Nonnatural Amino Acids into Streptavidin for Highly Sensitive Detection of Biotin
Hiroshi Murakami, Takahiro Hohsaka, Yuki Ashizuka, Kimiko Hashimoto, Masahiko Sisido
Biomacromolecules 1 巻 ( 1 ) 頁： 118 - 125 2000年3月
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A chiral Eu3+-thienoyltrifluoroacetone complex on an avidin tetramer: luminescence and CD studies on the supramolecular protein-metal chelate complex
Taki, M. and Murakami, H. and Sisido, M.
Chem. Commun. ( 13 ) 頁： 1199-1200 2000年
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A chiral Eu3+–thienoyltrifluoroacetone complex on an avidin tetramer: luminescence and CD studies on the supramolecular protein–metal chelate complex
Masumi Taki, Hiroshi Murakami, Masahiko Sisido
Chemical Communications ( 13 ) 頁： 1199 - 1200 2000年
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Efficient incorporation of nonnatural amino acids with large aromatic groups into streptavidin in in vitro protein synthesizing systems
Hohsaka, T. and Kajihara, D. and Ashizuka, Y. and Murakami, H. and Sisido, M.
J. Am. Chem. Soc. 121 巻 ( 1 ) 頁： 34-40 1999年
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Incorporation of two different nonnatural amino acids independently into a single protein through extension of the genetic code
Hohsaka, T. and Ashizuka, Y. and Sasaki, H. and Murakami, H. and Sisido, M.
J. Am. Chem. Soc. 121 巻 ( 51 ) 頁： 12194-12195 1999年
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Site-directed incorporation of p-nitrophenylalanine into streptavidin and site-to-site photoinduced electron transfer from a pyrenyl group to a nitrophenyl group on the protein framework
Murakami, H. and Hohsaka, T. and Ashizuka, Y. and Sisido, M.
J. Am. Chem. Soc. 120 巻 ( 30 ) 頁： 7520-7529 1998年
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Incorporation of nonnatural amino acids into streptavidin through in vitro frame-shift suppression
Hohsaka, T. and Ashizuka, Y. and Murakami, H. and Sisido, M.
J. Am. Chem. Soc. 118 巻 ( 40 ) 頁： 9778-9779 1996年