J-GLOBAL         Last updated: Jul 2, 2019 at 02:42
Gifu University
Faculty of Engineering


Synthesis of proteins including non-natural amino acid

Research Areas


Academic & Professional Experience

Gifu University Faculty of Engineering, Department of Biomolecular Science

Published Papers

Shinji Yamashita, Naoya Shibata, Akiyoshi Boku-Ikeda, Erika Abe, Ayumi Inayama, Takashi Yamaguchi, Ayano Higuma, Kaoru Inagaki, Tomoyo Tsuyuzaki, Satoshi Iwamoto, Satoshi Ohno, Takashi Yokogawa, Kazuya Nishikawa, Kazal Boron Biswas, A. H. M. Nurun Nabi, Tsutomu Nakagawa, Fumiaki Suzuki, Akio Ebihara
BMC Biotechnol   16 33   Apr 2016   [Refereed]
Takuya Kawamura, Akira Hirata, Satoshi Ohno, Yuichiro Nomura, Tomoko Nagano, Nobukazu Nameki, Takashi Yokogawa, Hiroyuki Hori
Nucleic Acids Research   44(4) 1894-1908   Feb 2016   [Refereed]
Yuichiro Nomura, Satoshi Ohno, Kazuya Nishikawa, Takashi Yokogawa
Genes to Cells   21 41-52   Jan 2016   [Refereed]
© 2016 the Molecular Biology Society of Japan and John Wiley & Sons Australia, Ltd. In many archaeal tRNAs, archaeosine is found at position 15. During archaeosine biosynthesis, archaeal tRNA-guanine transglycosylase (ArcTGT) first replaces the gu...
Ai Kazayama, Ryota Yamagami, Takashi Yokogawa, Hiroyuki Hori
Journal of Biochemistry   157 411-418   2015   [Refereed]
© 2015 The Authors 2015. Published by Oxford University Press on behalf of the Japanese Biochemical Society. All rights reserved. The solid-phase DNA probe method, in which a target transfer RNA (tRNA) is hybridized with a complementary DNA oligom...
Natsumi Inada, Kosuke Nakamoto, Takashi Yokogawa, Yoshihito Ueno, Yoshihito Ueno
European Journal of Medicinal Chemistry   103 460-472   2015   [Refereed]
© 2015 Elsevier Masson SAS. All rights reserved. In this study, we aimed to create small interfering RNAs (siRNAs) with increased silencing activities and nuclease resistance properties. Therefore, we designed and synthesized five types of siRNA c...
Ikeda-Boku Akiyoshi, Kondo Keisuke, Ohno Satoshi, Yoshida Erika, Yokogawa Takashi, Hayashi Nobuhiro, Nishikawa Kazuya
Journal of biochemistry   154(2) 159-165   Aug 2013   [Refereed]
We developed a novel method for capturing proteins that interact with a target protein. This method utilizes a protein containing a site-specifically incorporated 3-azidotyrosine (N3-Y) and FG beads for immobilization of the protein via an azido g...
Yuichiro Nomura, Yumiko Onda, Satoshi Ohno, Hiroki Taniguchi, Kaori Ando, Natsuhisa Oka, Kazuya Nishikawa, Takashi Yokogawa
Protein expression and purification   88(1) 13-19   Mar 2013   [Refereed]
Many archaeal tRNAs have archaeosine (G(+)) at position 15 in the D-loop and this is thought to strengthen the tertiary interaction with C48 in the V-loop. In the first step of G(+) biosynthesis, archaeosine tRNA-guanine transglycosylase (ArcTGT)(...
Ikeda-BokuAkiyoshi, Ohno Satoshi, Hibino Yuuka, Yokogawa Takashi, Hayashi Nobuhiro, Nishikawa Kazuya
Journal of biochemistry   153(3) 317-326   Mar 2013   [Refereed]
We developed an efficient method for introduction of 3-azidotyrosine (N(3)-Y) intoproteins in Escherichia coli cells. We constructed a plasmid that is adaptable for the constitutive expression of both Methanosarcinaacetivorans tyrosyl-tRNA synthet...
Hiroyuki Yamamoto, Rina Okada, Kazuaki Iguchi, Satoshi Ohno, Takashi Yokogawa, Kazuya Nishikawa, Keiko Unno, Minoru Hoshino, Atsushi Takeda
Biochemical and Biophysical Research Communications   430 999-1004   2013   [Refereed]
Progalanin is released from the small cell lung carcinoma line SBC-3A and converted to its active form by plasmin. To elucidate the role of progalanin activation in the extracellular compartment, matrix metalloproteinase (MMP) activity was studied...
Shige H. Yoshimura, Shige H. Yoshimura, Shahbaz Khan, Shahbaz Khan, Satoshi Ohno, Takashi Yokogawa, Kazuya Nishikawa, Takamitsu Hosoya, Hiroyuki Maruyama, Yoshikazu Nakayama, Yoshikazu Nakayama, Kunio Takeyasu, Kunio Takeyasu
Bioconjugate Chemistry   23 1488-1493   2012   [Refereed]
Establishing a nanobiohybrid device largely relies on the availability of various bioconjugation procedures which allow coupling of biomolecules and inorganic materials. Especially, site-specific coupling of a protein to nanomaterials is highly us...
Hiroyuki Yamamoto, Kazuaki Iguchi, Satoshi Ohno, Takashi Yokogawa, Kazuya Nishikawa, Minoru Hoshino
Protein and Peptide Letters   18(10) 1058-1064   Oct 2011   [Refereed]
Galanin is a neuropeptide that is widely distributed in the central and peripheral nervous systems. Some small cell lung carcinoma (SCLC) cell lines such as SBC-3A release only the high-molecular-mass form, with lower molecular mass forms being un...
Fumie Iraha, Kenji Oki, Takatsugu Kobayashi, Satoshi Ohno, Takashi Yokogawa, Kazuya Nishikawa, Shigeyuki Yokoyama, Shigeyuki Yokoyama, Kensaku Sakamoto
Nucleic Acids Research   38(11) 3682-3691   Jun 2010   [Refereed]
Non-natural amino acids have been genetically encoded in living cells, using aminoacyl-tRNA synthetase-tRNA pairs orthogonal to the host translation system. In the present study, we engineered Escherichia coli cells with a translation system ortho...
Takashi Yokogawa, Yusuke Kitamura, Daigo Nakamura, Satoshi Ohno, Kazuya Nishikawa
Nucleic Acids Research   38(6) e89   Apr 2010   [Refereed]
We found that both tetramethylammonium chloride (TMA-Cl) and tetra-ethylammonium chloride (TEA-Cl), which are used as monovalent cations for northern hybridization, drastically destabilized the tertiary structures of tRNAs and enhanced the formati...
Tsutomu Suzuki, Yoshiho Ikeuchi, Satoshi Kimura, Tomoyuki Numata, Tomoyuki Numata, Daigo Nakamura, Takashi Yokogawa, Toshihiko Ogata, Takeshi Wada, Takeo Suzuki
Nature Chemical Biology   6(4) 277-282   Feb 2010   [Refereed]
A modified base at the first (wobble) position of some tRNA anticodons is critical for deciphering the genetic code. In eukaryotes and eubacteria, AUA codons are decoded by tRNAsIle with modified bases pseudouridine (and/or inosine) and lysidine, ...
Chie Tomikawa, Takashi Yokogawa, Tamotsu Kanai, Hiroyuki Hori, Hiroyuki Hori, Hiroyuki Hori
Nucleic Acids Research   38(3) 942-957   Jan 2010   [Refereed]
N7-methylguanine at position 46 (m7G46) in tRNA is produced by tRNA (m7G46) methyltransferase (TrmB). To clarify the role of this modification, we made a trmB gene disruptant (ΔtrmB) of Thermus thermophilus, an extreme thermophilic eubacterium. Th...
Takako Awai, Satoshi Kimura, Chie Tomikawa, Anna Ochi, Ihsanawati, Yoshitaka Bessho, Yoshitaka Bessho, Shigeyuki Yokoyama, Shigeyuki Yokoyama, Shigeyuki Yokoyama, Satoshi Ohno, Kazuya Nishikawa, Takashi Yokogawa, Tsutomu Suzuki, Hiroyuki Hori, Hiroyuki Hori, Hiroyuki Hori
Journal of Biological Chemistry   284(31) 20467-20478   Jul 2009   [Refereed]
Transfer RNA (N2,N2-guanine)-dimethyltransferase (Trm1) catalyzes N2,N2-dimethylguanine formation at position 26 (m2 2G26) in tRNA. In the reaction, N2-guanine at position 26 (m2G26) is generated as an intermediate. The trm1 genes are found only i...
Chie Takemoto, Linda L. Spremulli, Lisa A. Benkowski, Takuya Ueda, Takuya Ueda, Takashi Yokogawa, Kimitsuna Watanabe, Kimitsuna Watanabe, Kimitsuna Watanabe
Nucleic Acids Research   37(5) 1616-1627   Apr 2009   [Refereed]
Mitochondrial (mt) tRNAMet has the unusual modified nucleotide 5-formylcytidine (f5C) in the first position of the anticodon. This tRNA must translate both AUG and AUA as methionine. By constructing an in vitro translation system from bovine liver...
Masaru Tsunoda, Yoshio Kusakabe, Nobutada Tanaka, Satoshi Ohno, Masashi Nakamura, Toshiya Senda, Tomohisa Moriguchi, Norio Asai, Mitsuo Sekine, Takashi Yokogawa, Kazuya Nishikawa, Kazuo T. Nakamura
Nucleic Acids Research   35(13) 4289-4300   May 2007   [Refereed]
The specific aminoacylation of tRNA by tyrosyl-tRNA synthetases (TyrRSs) relies on the identity determinants in the cognate tRNATyrs. We have determined the crystal structure of Saccharomyces cerevisiae TyrRS (SceTyrRS) complexed with a Tyr-AMP an...
Hideaki Shimizu, Shin ichi Yokobori, Takatoshi Ohkuri, Takashi Yokogawa, Kazuya Nishikawa, Akihiko Yamagishi
Journal of Molecular Biology   369(4) 1060-1069   Apr 2007   [Refereed]
Based on phylogenetic analysis of 16 S and 18 S rRNAs, the common ancestor of all organisms (Commonote) was proposed to be hyperthermophilic. We have previously tested this hypothesis using enzymes with ancestral residues that are inferred by mole...
Masato Abe, Satoshi Ohno, Takashi Yokogawa, Takeshi Nakanishi, Fumio Arisaka, Takamitsu Hosoya, Toshiyuki Hiramatsu, Masaaki Suzuki, Tomio Ogasawara, Tatsuya Sawasaki, Tatsuya Sawasaki, Tatsuya Sawasaki, Kazuya Nishikawa, Masaya Kitamura, Hiroyuki Hori, Hiroyuki Hori, Hiroyuki Hori, Yaeta Endo, Yaeta Endo, Yaeta Endo
Proteins: Structure, Function and Genetics   67(3) 643-652   Mar 2007   [Refereed]
A cell-free protein synthesis system is a powerful tool with which unnatural amino acids can be introduced into polypeptide chains. Here, the authors describe unnatural amino acid probing in a wheat germ cell-free translation system as a method fo...
Satoshi Ohno, Megumi Matsui, Takashi Yokogawa, Masashi Nakamura, Takamitsu Hosoya, Takamitsu Hosoya, Toshiyuki Hiramatsu, Toshiyuki Hiramatsu, Masaaki Suzuki, Nobuhiro Hayashi, Kazuya Nishikawa
Journal of Biochemistry   141(3) 335-343   Jan 2007   [Refereed]
An efficient method for site-selective modification of proteins using an unnatural amino acid, 3-azidotyrosine has been developed. This method utilizes the yeast amber suppressor tRNATyr/mutated tyrosyl-tRNA synthetase pair as a carrier of 3-azido...
Jun Ichi Fukunaga, Satoshi Ohno, Kazuya Nishikawa, Takashi Yokogawa
Nucleic Acids Research   34(10) 3181-3188   May 2006   [Refereed]
Although the yeast amber suppressor tRNA Tyr is a good candidate for a carrier of unnatural amino acids into proteins, slight misacylation with lysine was found to occur in an Escherichia coli protein synthesis system. Although it was possible to ...
Jun Ichi Fukunaga, Takashi Yokogawa, Satoshi Ohno, Kazuya Nishikawa
Journal of Biochemistry   139 689-696   Apr 2006
Through an exhaustive search for Escherichia coli aminoacyl-tRNA synthetase(s) responsible for the misacylation of yeast suppressor tRNA Tyr, E. coli lysyl-tRNA synthetase was found to have a weak activity to aminoacylate yeast amber suppressor tR...
Yoshio Kusakabe, Satoshi Ohno, Nobutada Tanaka, Masashi Nakamura, Masaru Tsunoda, Tomohisa Moriguchi, Norio Asai, Mitsuo Sekine, Takashi Yokogawa, Kazuya Nishikawa, Kazuo T. Nakamura
Protein and Peptide Letters   13(4) 417-419   Apr 2006   [Refereed]
Yeast tyrosyl-tRNA synthetase (yTyrRS) has been crystallized by the vapor diffusion method in the presence of its cognate tRNATyr. The crystals belong to a tetragonal space group P41212 with cell dimensions of a = b = 63.85 Å, and c = 330.3 Å. The...
Jun Ichi Fukunaga, Masaki Gouda, Koji Umeda, Satoshi Ohno, Takashi Yokogawa, Kazuya Nishikawa
Journal of Biochemistry   139(1) 123-127   Jan 2006   [Refereed]
Because T7 RNA polymerase has a strong preference for particular sequences to initiate transcription, some RNAs having pyrimidine-rich sequences at their 5′-end (yeast tRNATyr, for example) are hardly transcribed by this enzyme. To circumvent this...
Zemfira N. Karamysheva, Zemfira N. Karamysheva, Zemfira N. Karamysheva, Andrey L. Karamyshev, Andrey L. Karamyshev, Koichi Ito, Takashi Yokogawa, Kazuya Nishikawa, Yoshikazu Nakamura, Senya Matsufuji
Nucleic Acids Research   31(20) 5949-5956   Oct 2003   [Refereed]
Translation termination in eukaryotes is mediated by the release factors eRF1 and eRF3, but mechanisms of the interplay between these factors are not fully understood, due partly to the difficulty of measuring termination on eukaryotic mRNAs. Here...
Masaki Gouda, Takashi Yokogawa, Haruichi Asahara, Kazuya Nishikawa
FEBS Letters   518(1-3) 139-143   May 2002   [Refereed]
Class I aminoacyl-tRNA synthetases have been thought to be single polypeptide enzymes. However, the complete genome sequence of a hyper thermophile Aquifex aeolicus suggests that the gene for leucyl-tRNA synthetases (LeuRS) is probably split into ...
Ichiro Hirao, Takashi Ohtsuki, Tsuyoshi Fujiwara, Tsuneo Mitsui, Tomoko Yokogawa, Taeko Okuni, Hiroshi Nakayama, Koji Takio, Takashi Yabuki, Takanori Kigawa, Koichiro Kodama, Takashi Yokogawa, Kazuya Nishikawa, Shigeyuki Yokoyama
Nature Biotechnology   20(2) 177-182   Feb 2002   [Refereed]
An unnatural base pair of 2-amino-6-(2-thienyl)purine (denoted by s) and pyridin-2-one (denoted by y) was developed to expand the genetic code. The ribonucleoside triphosphate of y was site-specifically incorporated into RNA, opposite s in a templ...
Masaki Gouda, Takashi Yokogawa, Kazuya Nishikawa
Biochemical and Biophysical Research Communications   297 950-955   2002   [Refereed]
The active form of the leucyl-tRNA synthetase from an extreme thermophile Aquifex aeolicus has a heterodimeric (α/β type) quaternary structure that is unique among class I aminoacyl-tRNA synthetases. In an attempt to clarify the individual roles o...
Takao Hanada, Tsutomu Suzuki, Tsutomu Suzuki, Takashi Yokogawa, Chie Takemoto-Hori, Mathias Sprinzl, Kimitsuna Watanabe, Kimitsuna Watanabe
Genes to Cells   6(12) 1019-1030   Dec 2001   [Refereed]
Background: Metazoan mitochondrial (mt) tRNAs are structurally quite different from the canonical cloverleaf secondary structure. The mammalian mt tRNASerGCU for AGY codons (Y = C or U) lacks the entire D arm, whereas tRNASerUGA for UCN codons (N ...
Satoshi Ohno, Takashi Yokogawa, Kazuya Nishikawa
Journal of Biochemistry   130(3) 417-423   Sep 2001   [Refereed]
In an attempt to generate mutant aminoacyl-tRNA synthetases capable of charging non-canonical amino acids, a series of yeast tyrosyl-tRNA synthetase (TyrRS) mutants was constructed by site-specific mutagenesis of putative active site residues, whi...
Yoshihiro Shimizu, Akio Inoue, Yukihide Tomari, Tsutomu Suzuki, Takashi Yokogawa, Kazuya Nishikawa, Takuya Ueda
Nature Biotechnology   19(8) 751-755   Aug 2001   [Refereed]
We have developed a protein-synthesizing system reconstituted from recombinant tagged protein factors purified to homogeneity. The system was able to produce protein at a rate of about 160 μg/ml/h in a batch mode without the need for any supplemen...
Takashi Yokogawa, Nobukazu Shimada, Nono Takeuchi, Lisa Benkowski, Tsutomu Suzuki, Akira Omori, Takuya Ueda, Kazuya Nishikawa, Linda L. Spremulli, Kimitsuna Watanabe
Journal of Biological Chemistry   275(26) 19913-19920   Jun 2000   [Refereed]
Animal mitochondrial protein synthesis systems contain two serine tRNAs (tRNAs(Ser)) corresponding to the codons AGY and UCN, each possessing an unusual secondary structure; the former lacks the entire D arm, and the latter has a slightly differen...
Satoshi Ohno, Takashi Yokogawa, Isao Fujii, Haruichi Asahara, Hachiro Inokuchi, Kazuya Nishikawa
Journal of Biochemistry   124(6) 1065-1068   Dec 1998   [Refereed]
An efficient system was developed for the co-expression of a yeast tRNA(Tyr)/tyrosyl-tRNA synthetase (TyrRS) pair in Escherichia coli. Analysis of suppression patterns using several sets of E. coli and λ phage mutants indicated that the expressed ...
Ikuko Hayashi, Takashi Yokogawa, Takashi Yokogawa, Gota Kawai, Takuya Ueda, Kazuya Nishikawa, Kazuya Nishikawa, Kimitsuna Watanabe
Journal of Biochemistry   121(6) 1115-1122   Jun 1997   [Refereed]
The mammalian mitochondrial tRNA(Ser)(GCU) (mt tRNA(Ser)(GCU)) has a unique structure in that it lacks the whole D arm. To elucidate its higher-order structure, we synthesized unmodified bovine mt tRNA(Ser)(GCU) using T7 RNA polymerase and measure...
Velinda L. Woriax, James M. Bullard, Lan Ma, Takashi Yokogawa, Linda L. Spremulli, Linda L. Spremulli
Biochimica et Biophysica Acta - Gene Structure and Expression   1352(1) 91-101   May 1997   [Refereed]
Polyclonal antibodies have been prepared against both components of the bovine liver mitochondrial translational elongation factor Tu and Ts complex (EF-Tu · Ts(mt)). The antibodies against EF-Tu(mt) cross-react somewhat with Escherichia coli EF-T...
Mami Matsuo, Takashi Yokogawa, Kazuya Nishikawa, Kimitsuna Watanabe, Norihiro Okada
Journal of Biological Chemistry   270(17) 10097-10104   Apr 1995   [Refereed]
Two lysine isoacceptor tRNAs corresponding to the codons AAA and AAG, respectively, were isolated from squid (Loligo bleekeri), and their nucleotide sequences were determined. During this analysis, we discovered that the tRNA with the anticodon CU...
Chie Takemoto, Tomohiro Koike, Takashi Yokogawa, Lisa A Benkowski, Linda L Spremulli, Takuya Ueda, Kazuya Nishikawa, Kimitsuna Watanabe
Biochimie   77 104-108   Jan 1995   [Refereed]
The ability of bovine mitochondrial tRNAMet with the anticodon f5CAU (where f5C is 5-formylcytidine) to decode AUG and AUA codons was examined in a codon-dependent ribosomal binding assay. The AUG codon stimulated the binding of Met-tRNAMet to mit...
Takuya Ueda, Tsutomu Suzuki, Takashi Yokogawa, Kazuya Nishikawa, Kimitsuna Watanabe
76(12) 1217-1222   Dec 1994   [Refereed]
Yoh-Ichi Watanabe, Gota Kawai, Takashi Yokogawa, Takashi Yokogawa, Nobuhiro Hayashi, Nobuhiro Hayashi, Yoshinori Kumazawa, Yoshinori Kumazawa, Takuya Ueda, Kazuya Nishikawa, Ichiro Hirao, Ichiro Hirao, Kin Ichiro Miura, Kin Ichiro Miura, Kimitsuna Watanabe
Nucleic Acids Research   22(24) 5378-5384   Dec 1994   [Refereed]
On the basis of enzymatic probing and phylogenetic comparison, we have previously proposed that mammalian mitochondrial tRNAsSer (anticodon UGA) possess a slightly altered cloverleaf structure in which only one nucleotide exists between the accept...
Yuriko Komine, Makoto Kitabatake, Takashi Yokogawa, Kazuya Nishikawa, Hachiro Inokuchi
Proceedings of the National Academy of Sciences of the United States of America   91(20) 9223-9227   Sep 1994   [Refereed]
We have determined that 10Sa RNA (one of the small stable RNAs found in Escherichia coli) has an interesting structural feature: the 5' end and the 3' end of 10Sa RNA can be arranged in a structure that is equivalent to a half-molecule (acceptor s...
Jiro Moriya, Takashi Yokogawa, Kawori Wakita, Takuya Ueda, Kazuya Nishikawa, Pamela F. Crain, Takeshi Hashizume, Steven C. Pomerantz, James A. McCloskey, Gota Kawai, Nobuhiro Hayashi, Shigeyuki Yokoyama, Kimitsuna Watanabe
Biochemistry   33(8) 2234-2239   May 1994   [Refereed]
Kawori Wakita, Yoh Ichi Watanabe, Takashi Yokogawa, Yoshinori Kumazawa, Yoshinori Kumazawa, Shingo Nakamura, Shingo Nakamura, Takuya Ueda, Kimitsuna Watanabe, Kazuya Nishikawa
Nucleic Acids Research   22(3) 347-353   Feb 1994   [Refereed]
Bovine mitochondrial (mt) phenylalanine tRNA (tRNAPhe), which lacks the 'conserved' GG and TΨYCG sequences, was efficiently purified by the selective hybridization method using a solid phase DNA probe. The entire nucleotide sequence of the tRNA, i...
Tatsuya Niimi, Osamu Nureki, Takashi Yokogawa, Nobuhiro Hayashi, Kazuya Nishikawa, Kimitsuna Watanabe, Shigeyuki Yokoyama
Nucleosides and Nucleotides   13 1231-1237   Jan 1994   [Refereed]
For Escherichia coli tRNA1/(Ile) having anticodon G34-A35-U36, two variants with substitution and/or insertion in the anticodon loop were prepared by in vitro recombinant RNA method. A variant with replacement of the N-((9-β-D-ribofuranosyl-purine...
Gota Kawail, Takashi Yokogawa, Kazuya Nishikawa, Takuya Ueda, Takeshi Hashizume, James A. McCIoskey, Shigeyuki Yokoyama, Kimitsuna Watanabe
Nucleosides and Nucleotides   13 1189-1199   Jan 1994   [Refereed]
Conformational properties of a novel modified nucleoside, 5- formylcytidine (f5C), which is found at the first position of the anticodon of bovine mitochondrial tRNA(Met), were analyzed by 1H-NMR spectroscopy. f5C has a normal amino tautomeric for...
Tsutomu Suzuki, Takuya Ueda, Takashi Yokogawa, Kazuya Nishikawa, Kimitsuna Watanabe
Nucleic Acids Research   22(2) 115-123   Jan 1994   [Refereed]
Five serine and three leucine isoacceptor tRNAs were purified from the asporogenic yeast Candida cylindracea, in which codon CUG is translated as serine instead of leucine [1], and their primary structures were determined. From the wobble hypothes...
Shigeo Yoshionari, Tomohiro Koike, Takashi Yokogawa, Kazuya Nishikawa, Takuya Ueda, Kinichiro Miura, Kimitsuna Watanabe
FEBS Letters   338(2) 137-142   Jan 1994   [Refereed]
A number of proteins functioning in mitochondria are synthesized in the cytoplasm and imported into the mitochondria via specific transport systems. In mammals, on the contrary, mitochondrial membranes have generally been considered to be impermea...
Ichiro Motoki, Takashi Yokogawa, Tsunemi Hasegawa, Kimitsuna Watanabe, Kazuya Nishikawa
5(4) 85-90   Dec 1993   [Refereed]
Takashi Yokogawa, Tsutomu Suzuki, Takuya Ueda, Takuya Ueda, Miki Mori, Takeshi Ohama, Yoshiyuki Kuchino, Shigeo Yoshinari, Ichiro Motoki, Kazuya Nishikawa, Syozo Osawa, Kimitsuna Watanabe, Kimitsuna Watanabe
Proceedings of the National Academy of Sciences of the United States of America   89(16) 7408-7411   Aug 1992   [Refereed]
In the asporogenic yeast Candida cylindracea, the codon CUG is read as serine instead of leucine. This is an unusual instance in which the amino acid assignment of a codon deviates from the universal code. To infer the evolutionary process of this...
Yoshinori Kumazawa, Yoshinori Kumazawa, Takashi Yokogawa, Hiromichi Tsurui, Hiromichi Tsurui, Kin Ichiro Miura, Kin Ichiro Miura, Kimitsuna Watanabe
Nucleic Acids Research   20(9) 2223-2232   May 1992   [Refereed]
In the course of developing a method to purify a single tRNA species efficiently, we have examined hybridization effciencies between some tRNAs and short oligodeoxyribonucleotide probes both by the filter and solution hybridization methods without...
Takashi Yokogawa, Yoh Ichi Watanabe, Yoshinori Kumazawa, Takuya Ueda, Ichiro Hirao, Kin Ichiro Miura, Kimitsuna Watanabe, Kimitsuna Watanabe
Nucleic Acids Research   19(22) 6101-6105   Nov 1991   [Refereed]
Bovine mitochondrial tRNASer(UCN) has been thought to have two U-U mismatches at the top of the acceptor stem, as inferred from its gene sequence. However, this unusual structure has not been confirmed at the RNA level. In the course of investigat...
Yoshinori Kumazawa, Takashi Yokogawa, Emi Hasegawa, Kin-ichiro Miura, Kimitsuna Watanabe
Journal of Biological Chemistry   264(22) 13005-13011   Aug 1989   [Refereed]
Bovine mitochondrial (mt) phenylalanine tRNA (tRNA(Phe) was purified on a large scale using a new hybridization assay method developed by the authors. Although its melting profile suggested a loose higher order structure, presumably influenced by ...
Takashi Yokogawa, Yoshinori Kumazawa, Kin-ichiro Miura, Kimitsuna Watanabe
Nucleic Acids Research   17(7) 2623-2638   Apr 1989   [Refereed]


Yuichiro Nomura, Takashi Yokogawa, Shigeo Yoshinari, Yoh ichi Watanabe, Satoshi Ohno, Kazuya Nishikawa
Nucleic acids symposium series (2004)   299-300   May 2011
At least two separate enzymes, an endonuclease and a ligase, are thought to be involved in the tRNA splicing pathway. The yeast and archaeal endonucleases acting in the first step of tRNA splicing commonly produce 2', 3'-cyclic phosphate and 5' hy...
Takashi Yokogawa, Hanim Munirah Binti Che Hassan, Yukiko Yokota, Satoshi Ohno, Kazuya Nishikawa
Nucleic acids symposium series (2004)   295-296   May 2011
In order to create an ochre suppressor tRNA which exclusively recognizes UAA codon, we replaced the G34 at the first position of yeast tRNA(Tyr)[GPsiA] anticodon with pseudouridine34 (Psi34) by using the molecular surgery technique. This tRNA(Tyr)...
Takashi Yokogawa, Satoshi Ohno, Kazuya Nishikawa
Methods in molecular biology (Clifton, N.J.)   607 227-242   Feb 2010
An efficient method for site-selective introduction of 3-azidotyrosine into proteins has been developed. This method utilizes the yeast amber suppressor tRNA(Tyr)/mutant tyrosyl-tRNA synthetase (Y43G) pair as the carrier of 3-azidotyrosine in an E...
T. Hasegawa, T. Yokogawa
Nucleic acids symposium series   7-8   Jan 2000
A major proline tRNA was purified from bulk Escherichia coli A19 tRNA by affinity chromatography with a biotinylated DNA probe. Its nucleotide sequence including modified nucleotides was determined by the post-labelling technique. In order to stud...
T. Matsuki, R. Ito, T. Yokogawa, K. Nishikawa
Nucleic acids symposium series   75-76   Jan 1993
A new procedure for non-radioactive labeling of the 3'-terminal -OH was developed to facilitate the sequencing works on low-molecular-weight RNAs. At first, biotinylated pCp (cytidine 3',5'-bisphosphate) was synthesized and ligated to the 3'-termi...

Research Grants & Projects

Ministry of Education, Culture, Sports, Science and Technology: Grants-in-Aid for Scientific Research(基盤研究(C))
Project Year: 2011 - 2013    Investigator(s): Takashi YOKOGAWA
In Archaea and Eucarya, some tRNA genes contain introns. Since the precursor tRNA (pre-tRNA) is not functional in protein biosynthesis, exact removal of introns must be essential. Recently, it was found that the RtcB catalyzes the ligation of exon...
Japan Society for the Promotion of Science: Grants-in-Aid for Scientific Research
Project Year: 2011 - 2013
Ministry of Education, Culture, Sports, Science and Technology: Grants-in-Aid for Scientific Research(基盤研究(B))
Project Year: 2008 - 2010    Investigator(s): Takashi YOKOGAWA
Restriction of the number of endogenous tRNAs in protein synthesis system causes "empty codons" in the genetic code dictionary. If we can create a tRNA that reads "an empty codon" and accepts an unnatural amino acid, it means that we develop an ar...