発表論文
Publications

下線は,行木研出身者


Hoshino, S., Kanemura, R., Kurita, D., Soutome, Y., Himeno, H., Takaine, M., Watanabe, M. Nameki, N.
A stalled-ribosome rescue factor Pth3 is required for mitochondrial translation against antibiotics in Saccharomyces cerevisiae.
Communications Biology, 4, 300 (2021). https://doi.org/10.1038/s42003-021-01835-6 Free PDF article
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矢島美帆乃
金村涼平,小椋義俊,行木信一
可動性スーサイドベクターを利用したグラム陰性菌遺伝子欠損株の作製法 (jbsoc.or.jp)
「生化学」 2020 .92(4): 591-596.
doi:10.14952/SEIKAGAKU.2020.920591

Morimoto A, Kannari M, Tsuchida Y, Sasaki S, Saito C, Matsuta T, Maeda T, Akiyama M, Nakamura T, Sakaguchi M, Nameki N, Gonzalez FJ, Inoue Y.
An HNF4α-microRNA-194/192 signaling axis maintains hepatic cell function.
J Biol Chem. 2017 Jun 23;292(25):10574-10585. Free PDF article

Kuwasako, K., Nameki, N., Tsuda, K., Takahashi, M., Sato, A., Tochio, N., Inoue, M., Terada, T., Kigawa, T., Kobayashi, N., Shirouzu, M., Ito, T., Sakamoto, T., Wakamatsu, K., Güntert, P., Takahashi, S., Yokoyama, S., Muto, Y.
Solution structure of the first RNA recognition motif domain of human spliceosomal protein SF3b49 and its mode of interaction with a SF3b145 fragment.
Protein Sci. 2017 Feb;26(2):280-29. Free PDF article

Multisite-specific archaeosine tRNA-guanine transglycosylase (ArcTGT) from Thermoplasma acidophilum,
a thermo-acidophilic archaeon.

Kawamura,T., Hirata, A., Ohno, S., Nomura, Y., Nagano, T, Nameki, N., Yokogawa, T., Hori, H.
Nucleic Acids Res. 2016 Feb 29;44(4):1894-908. Free PDF article

Himeno, H., Nameki, N., Kurita, D., Muto, A., Abo, T. [Review]
Ribosome rescue systems in bacteria
Biochmie 2015 Jul;114:102-112.

行木信一
細菌・ミトコンドリアにおけるtmRNA非依存的な翻訳停滞解消機構 [総説]
「生化学」 2014 86(1):86-91.Free PDF article


Kogure, H., Handa, H., Nagata, M., Kanai, N., Güntert, P., Kubota, K., Nameki, N.
Identification of residues required for stalled-ribosome rescue in the codon-independent release factor YaeJ.
Nucleic Acids Res. 2014 Mar 1;42(5):3152-63. Free PDF article

Kubota, K., Toyama, Y. Nameki, N., Wakamatsu, K.
Effect of deglycosylation on the fibrin polymerization depending on NaCl concentration.
Key Eng. Mater. 2013 596:213-218.

Nameki, N., Someya, T., Kawai, G. [著書,分担]
Translational control with small RNAs.
In: Dubitzky W, Wolkenhauer O, Cho K-H, Yokota H. (editors), Encyclopedia of Systems Biology
Springer New York, 2013, 2289-92.

Kogure, H., Hikawa, Y., Hagihara, M., Tochio, N., Koshiba, S., Inoue, Y., Güntert, P., Kigawa, T., Yokoyama, S., Nameki, N.
Solution structure and siRNA-mediated knockdown analysis of the mitochondrial disease-related protein C12orf65.
Proteins. 2012 Nov;80(11):2629-42.

Hagihara, M., Takei, A., Ishii, T., Kubota, K., Wakamatsu, K., Nameki, N.
Inhibitory effects of choline-O-sulfate on amyloid formation of human islet amyloid polypeptide.
FEBS Open Bio. 2012 Dec;2:20-5. Free PDF article

Toyama, Y., Miyamoto, K., Kubota, K., Wakamatsu, K., Nameki, N., Saheki, T., Ochiai, M.
Additive effects of betaines on the fibrinogen cryogelation induced by low temperature.
TMRS-J. 2011 36(3):393-6.

Kubota, K., Yatagai, Y., Watanabae, N., Fukuda, T., Toyama, Y., Nameki, N., Ochiai, M.
Mixing effect of deglycosylated fibrinogen on the fibrin polymerization.
TMRS-J. 2011 36(3):375-8.

Yatagai, Y., Kubota, K., Toyama, Y., Nameki, N., Ochiai, M.
Effect of plasmin treatment on the fibrin gel formation.
TMRS-J. 2011 36(3):371-4.

Kubota, K., Wakamatsu, K., Nameki, N., Toyama, Y.
SAXS study on the role of the αC region of fibrinogen in the fibrin.
Key Eng Mater. 2011 497:41-6.

Handa, Y., Inaho, N., Nameki, N.
YaeJ is a novel ribosome-associated protein in Escherichia coli that can hydolyze peptidyl-tRNA on stalled ribosomes.
Nucleic Acids Res. 2011 Mar 1;39(5):1739-48. /First published online: Nov 3, 2010 Free PDF article
2010 Featured Articlesthe top 5% of NAR papers

Handa, Y., Hikawa, Y., Tochio, N., Kogure, H., Inoue, M., Koshiba, S., Güntert, P., Inoue, Y., Kigawa, T., Yokoyama, S., Nameki, N.
Solution structure of the catalytic domain of the mitochondrial protein ICT1 that is essential for cell vitality.
J Mol Biol. 2010 Nov 26;404(2):260-73.

Kubota K, Masuda Y, Toyama Y, Nameki N, Okumura N, Ochiai M.
Gel formation of recombinant fibrinogen lacking αC termini.
Prog Colloid Polym Sci. 2009 136:187-93.

Kado S, Kubota K, Nameki N, Wakamatsu K.
Effects of NDSB on the protein aggregation.
TMRS-J. 2008 33(2):479-82.

Xiang L, Ishii T, Hosoda K, Kamiya A, Enomoto M, Nameki N, Inoue Y, Kubota K, Kohno T, Wakamatsu K.
Interaction of anti-aggregation agent dimethylethylammonium propane sulfonate with acidic fibroblast growth factor.
J Magn Reson. 2008 Sep;194(1):147-51.

姫野俵太,栗田大輔,高田一馬,今野貴之,塙(末次)京子,竹本千重,川添将仁,横山茂之,行木信一,河合剛太,武藤.
トランス・トランスレーションの分子メカニズム [総説]
生化学. 2007 Mar;79(3):213-21.

Kawagoe-Takaki H*, Nameki N*, Kajikawa M, Okada N.
Probing the secondary structure of salmon SmaI SINE RNA.
Gene. 2006 Jan 3;365:67-73.

Nameki N, Someya T, Okano S, Suemasa R, Kimoto M, Hanawa-Suetsugu K, TeradaT, Shirouzu M, Hirao I, Takaku H, Himeno H, Muto A, Kuramitsu S, Yokoyama S, Kawai G.
Interaction analysis between tmRNA and SmpB from Thermus thermophilus.
J Biochem. 2005 Dec;138(6):729-39.

Molecular recognition and evolution of Escherichia coli tyrosine tRNA by tyrosyl-tRNA synthetase.
Asahara H, Iwaki J, Yokozawa J, Tamura K, Nameki N, Hasegawa T.
Viva Origino. 2005 Sep;33(3):194-207.

Nameki N, Tochio N, Koshiba S, Inoue M, Yabuki T, Aoki M, Seki E, Matsuda T, Fujikura Y, Saito M, Ikari M,
Watanabe M, Terada T, Shirouzu M, Yoshida M, Hirota H, Tanaka A, Hayashizaki Y, Güntert P, Kigawa T, Yokoyama S.
Solution structure of the PWWP domain of the hepatoma-derived growth factor family.
Protein Sci. 2005 Mar;14(3):756-64. Free PDF article

Nameki N, Yoneyama M, Koshiba S, Tochio N, Inoue M, Seki E, Matsuda T, Tomo Y, Harada T, Saito K, Kobayashi N,
Yabuki T, Aoki M, Nunokawa E, Matsuda N, Sakagami N, Terada T, Shirouzu M, Yoshida M, Hirota H, Osanai T,
Tanaka A, Arakawa T, Carninci P, Kawai J, Hayashizaki Y, Kinoshita K, Güntert P, Kigawa T, Yokoyama S.
Solution structure of the RWD domain of the mouse GCN2 protein.
Protein Sci. 2004 Aug;13(8):2089-100. Free PDF article

Ishitani R, Nureki O, Nameki N, Okada N, Nishimura S, Yokoyama S.
Alternative tertiary structure of tRNA for recognition by a posttranscriptional modification enzyme.
Cell. 2003 May 2;113(3):383-94.

Someya T*, Nameki N*, Hosoi H, Suzuki S, Hatanaka H, Fujii M, Terada T, Shirouzu M, Inoue Y, Shibata T, Kuramitsu S,
Yokoyama S, Kawai G.
Solution structure of a tmRNA-binding protein, SmpB, from Thermus thermophilus.
FEBS Lett. 2003 Jan 30;535(1-3):94-100.

Ishitani R, Nureki O, Fukai S, Kijimoto T, Nameki N, Watanabe M, Kondo H, Sekine M, Okada N, Nishimura S, Yokoyama S.
Crystal structure of archaeosine tRNA-guanine transglycosylase.
J Mol Biol. 2002 May 3;318(3):665-77.

Ishitani R, Nureki O, Kijimoto T, Watanabe M, Kondo H, Nameki N, Okada N, Nishimura S, Yokoyama S.
Crystallization and preliminary X-ray analysis of the archaeosine tRNA-guanine transglycosylase from Pyrococcus horikoshii.
Acta Crystallogr D Biol Crystallogr. 2001 Nov;57(Pt 11):1659-62.

Watanabe M*, Nameki N*, Matsuo-Takasaki M, Nishimura S, Okada N.
tRNA recognition of tRNA-guanine transglycosylase from a hyperthermophilic archaeon, Pyrococcus horikoshii.
J Biol Chem. 2001 Jan 26;276(4):2387-94. Free PDF article

Nameki N, Tadaki T, Himeno H, Muto A.
Three of four pseudoknots in tmRNA are interchangeable and are substitutable with single-stranded RNAs.
FEBS Lett. 2000 Mar 31;470(3):345-9.

Nameki N, Chattopadhyay P, Himeno H, Muto A, Kawai G.
An NMR and mutationalanalysis of an RNA pseudoknot of Escherichia coli tmRNA involved in trans-translation.
Nucleic Acids Res. 1999 Sep 15;27(18):3667-75. Free PDF article

Nameki N, Tadaki T, Muto A, Himeno H.
Amino acid acceptor identity switch of Escherichia coli tmRNA from alanine to histidine in vitro.
J Mol Biol. 1999 May 28;289(1):1-7.

Nameki N*, Felden B*, Atkins JF, Gesteland RF, Himeno H, Muto A.
Functional and structural analysis of a pseudoknot upstream of the tag-encoded sequence in E. coli tmRNA.
J Mol Biol. 1999 Feb 26;286(3):733-44.

Asahara H, Nameki N, Hasegawa T.
In vitro selection of RNAs aminoacylated by Escherichia coli leucyl-tRNA synthetase.
J Mol Biol. 1998 Oct 30;283(3):605-18.

Nameki N, Tamura K, Asahara H, Hasegawa T.
Recognition of tRNA(Gly) by three widely diverged glycyl-tRNA synthetases.
J Mol Biol. 1997 May 9;268(3):640-7.

Nameki N, Asahara H, Hasegawa T.
Identity elements of Thermus thermophilus tRNA(Thr).
FEBS Lett. 1996 Nov 4;396(2-3):201-7.

Nameki N
Identity elements of tRNA(Thr) towards Saccharomyces cerevisiae threonyl-tRNA synthetase.
Nucleic Acids Res. 1995 Aug 11;23(15):2831-6 .Free PDF article

Nameki N, Asahara H, Shimizu M, Okada N, Himeno H.
Identity elements of Saccharomyces cerevisiae tRNA(His).
Nucleic Acids Res. 1995 Feb 11;23(3):389-94. Free PDF article

Tamura K, Nameki N, Hasegawa T, Shimizu M, Himeno H.
Role of the CCA terminal sequence of tRNA(Val) in aminoacylation with valyl-tRNA synthetase.
J Biol Chem. 1994 Sep 2;269(35):22173-7.Free PDF article

Asahara H, Himeno H, Tamura K, Nameki N, Hasegawa T, Shimizu M.
Escherichia coli seryl-tRNA synthetase recognizes tRNA(Ser) by its characteristic tertiary structure.
J Mol Biol. 1994 Feb 25;236(3):738-48.

Nameki N, Nishikawa K, Hasegawa T.
Similarity of tRNA recognition mechanism between Escherichia coli and yeast.
J Adv Sci. 1993 5(4):95-8. Free PDF article

Nameki N, Tamura K, Himeno H, Asahara H, Hasegawa T, Shimizu M.
Escherichia coli tRNA(Asp) recognition mechanism differing from that of the yeast system.
Biochem Biophys Res Commun. 1992 Dec 15;189(2):856-62.


*Two authors equally contributed to the work.