原著論文

  1. Protein surface charge effect on 3D domain swapping in cells for c-type cytochromes
    Yang H, Yamanaka M, Nagao S, Yasuhara K, Shibata N, Higuchi Y, Hirota S.
    Biochim. Biophys. Acta (Proteins Proteom). 2019, 1867(11),140265

  2. Domain-Swapping Design by Polyproline Rod Insertion
    Shiga S, Yamanaka M, Fujiwara W, Hirota S, Goda S, Makabe K.
    ChemBioChem 2019, 20(19), 2454-2457.

  3. Conferment of CO-controlled Dimer-Monomer Transition Property to Thermostable Cytochrome c' by Mutation in the Subunit-Subunit Interface
    Yamanaka M, Nakayama R, Fujii S, Wakai S, Sambongi Y, Hirota S.
    Bull. Chem. Soc. Jpn. 2019, 92(3), 702-709.

  4. Construction of a Triangle-Shaped Trimer and a Tetrahedron Using an α-Helix-Inserted Circular Permutant of Cytochrome c555
    Oda A, Nagao S, Yamanaka M, Ueda I, Watanabe H, Uchihashi T, Shibata N, Higuchi Y, Hirota S.
    Chem. Asian J. 2018, 13(8), 964-967. Featured on “Front Cover”.

  5. Oxidative Modification of Methionine80 in Cytochrome c by Reaction with Peroxides
    Nugraheni A. D., Ren C, Matsumoto Y, Nagao S, Yamanaka M, Hirota S.
    J. Inorg. Biochem. 2018, 182, 200-207.

  6. Stabilization of mesophilic Allochromatium vinosum cytochrome c' through specific mutations modeled by a thermophilic homologue
    Yamane-Koshizawa D, Fujii S, Maruno T, Kobayashi Y, Yamanaka M, Wakai S, Sambongi Y.
    Biosci. Biotechnol. Biochem. 2018, 82(2), 304-311.

  7. Formation and carbon monoxide-dependent dissociation of Allochromatium vinosum cytochrome c' oligomers using domain-swapped dimers
    Yamanaka M, Hoshizumi M, Nagao S, Nakayama R, Shibata N, Higuchi Y, Hirota S.
    Protein Sci. 2017, 26, 464-474.

  8. Rational design of domain-swapping-based c-type cytochrome heterodimers by using chimeric proteins
    Zhang M, Nakanishi T, Yamanaka M, Nagao S, Yanagisawa S, Shomura Y, Shibata N, Ogura T, Higuchi Y, Hirota S.
    ChemBioChem 2017, 18, 1712-1715.

  9. Structural and functional insights into thermally stable cytochrome c' from a thermophile
    Fujii S, Oki H, Kawahara K, Yamane D, Yamanaka M, Maruno T, Kobayashi Y, Masanari M, Wakai S, Nishihara H, Ohkubo T, Sambongi Y.
    Protein Sci. 2017, 26, 737-748.

  10. Difference in NaCl tolerance of membrane-bound 5'-nucleotidases purified from deep-sea and brackish water Shewanella species
    Kuribayashi T, Fujii S, Masanari M, Yamanaka M, Wakai S, Sambongi Y.
    Extremophiles. 2017, 21, 357-368.

  11. Domain swapping oligomerization of thermostable c-type cytochrome in E. coli cells
    Hayashi Y, Yamanaka M, Nagao S, Komori H, Higuchi Y, Hirota S.
    Sci. Rep., 2016, 6, 19334.

  12. Oligomerization enhancement and two domain swapping mode detection for thermostable cytochrome c552 via the elongation of the major hinge loop
    Ren C, Nagao S, Yamanaka M, Komori H, Shomura Y, Higuchi Y, Hirota S.
    Mol. BioSyst., 2015, 11, 3218-3221.

  13. Change in structure and ligand binding properties of hyperstable cytochrome c555 from Aquifex aeolicus by domain swapping
    Yamanaka M, Nagao S, Komori H, Higuchi Y, Hirota S.
    Protein Sci., 2015, 24, 366-375.

  14. Effect of a procaspase-activating compound on the catalytic activity of mature caspase-3
    Matsuo T, Yamada K, Ishida M, Miura Y, Yamanaka M, Hirota S.
    Bull. Chem. Soc. Jap., 2015, 88, 1221-1229.

  15. DNA cleavage by oxymyoglobin and cysteine-introduced metmyoglobin
    Deshpande MS, Junedi S, Prakash H, Nagao S, Yamanaka M, Hirota S.
    Chem Commun (Camb), 2014, 50,15034-15036.

  16. Formation of domain-swapped oligomer of cytochrome c from its molten globule state oligomer
    Deshpande MS, Parui PP, Kamikubo H, Yamanaka M, Nagao S, Komori H, Kataoka M, Higuchi Y, Hirota S.
    Biochemistry, 2014, 53, 4696-4703.

  17. High stability of apo-cytochrome c' from thermophilic Hydrogenophilus thermoluteolus
    Fujii S, Masanari M, Yamanaka M, Wakai S, Sambongi Y.
    Biosci. Biotechnol. Biochem., 2014, 78, 1191-1194.

  18. High thermal stability and unique trimer formation of cytochrome c’ from thermophilic Hydrogenophilus thermoluteolus
    Fujii S, Masanari M, Inoue H, Yamanaka M, Wakai S, Nishihara H, Sambongi Y.
    Biosci. Biotechnol. Biochem., 2013, 77, 1677-1681.

  19. Structural basis for the transcriptional regulation of heme homeostasis in Lactococcus lactis
    Sawai H,* Yamanaka M,* Sugimoto H, Shiro Y, Aono S.
    J. Biol. Chem., 2012, 287, 30755-30768, *equal contribution.

  20. Effects of heme on the thermal stability of mesophilic and thermophilic cytochromes c: Comparison between experimental and theoretical results
    Oda K, Kodama R, Yoshidome T, Yamanaka M, Sambongi Y, Kinoshita M.
    J. Chem. Phys., 2011, 134, 025101.

  21. Conferment of folding ability to a naturally unfolded apocytochrome c through introduction of hydrophobic amino acid residues
    Yamanaka M, Masanari M, Sambongi Y.
    Biochemistry, 2011, 50, 2313-2320.

  22. Hyperstability and crystal structure of cytochrome c555 from hyperthermophilic Aquifex aeolicus
    Obuchi M, Kawahara K, Motooka D, Nakamura S, Yamanaka M, Takeda T, Uchiyama S, Kobayashi Y, Ohkubo T, Sambongi Y.
    Acta Crystallogr. D Biol. Crystallogr, 2009, 65, 804-813.

  23. Heme is not required for Aquifex aeolicus cytochrome c555 polypeptide folding
    Yamanaka M, Mita H, Yamamoto Y, Sambongi Y.
    Biosci. Biotechnol. Biochem., 2009, 73, 2022-2025.

  24. Unexpected elevated production of Aquifex aeolicus cytochrome c555 in Escherichia coli cells lacking disulfide oxidoreductases
    Kojima N, Yamanaka M, Ichiki S, Sambongi Y.
    Biosci. Biotechnol. Biochem., 2005, 69, 1418-1421.



総説・解説

  1. タンパク質ドメインスワッピングの構造・機構解析
    廣田俊, 長尾聡, 山中優.
    ぶんせき, 日本分析化学会, 2017,464-467.

  2. 組み立て原理が示すタンパク質四次構造の周期表
    山中優.
    月刊化学, 2016,71(6),61-62

  3. ドメインスワッピング機構による蛋白質超分子化　蛋白質が構造領域の一部を分子間で交換することでパズルのように繋がる
    山中優, 廣田俊.
    化学と生物, 2016, 54, 315-317.

  4. シトクロム c生合成システムの進化 ゲノム情報に基づく細菌進化の視点から
    山中優, 三本木至宏.
    化学と生物 化学と生物 ,2010, 48, 375-377.

  5. 熱安定性が異なるシトクロムcの構造と折り畳み
    三本木至宏, 山中優, 長谷川淳, 内山進.
    熱測定, 2010, 37, 9-16.